============================================== 2020-07-18 09:39:39 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_NKO_CM-GSM2054339-Rep3.36mers.unique.bam --out Gata4_NKO_CM-GSM2054339-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:39:46 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_WT_CM-GSM2054331-Rep1.36mers.unique.bam --out Gata4_WT_CM-GSM2054331-Rep1.36mers.unique.GPS ============================================== 2020-07-18 09:39:50 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_NKO_CP-GSM2054337-Rep1.36mers.unique.bam --out Gata4_NKO_CP-GSM2054337-Rep1.36mers.unique.GPS ============================================== 2020-07-18 09:39:56 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_NKO_CP-GSM2054337-Rep3.36mers.unique.bam --out Gata4_NKO_CP-GSM2054337-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:39:59 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_DKO_CM-GSM2054341-Rep3.36mers.unique.bam --out Gata4_DKO_CM-GSM2054341-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:40:02 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_WT_CM-GSM2054329-Rep1.36mers.unique.bam --out Tbx5_WT_CM-GSM2054329-Rep1.36mers.unique.GPS ============================================== 2020-07-18 09:40:02 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_WT_CM-GSM2054329-Rep2.36mers.unique.bam --out Tbx5_WT_CM-GSM2054329-Rep2.36mers.unique.GPS Original read count stats: _IP Bases: 621230 HitCounts: 2.6910274E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 2 reads. ============================================== 2020-07-18 09:40:07 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_WT_CP-GSM2054326-Rep2.36mers.unique.bam --out Tbx5_WT_CP-GSM2054326-Rep2.36mers.unique.GPS The genome is segmented into 39623 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 2225227 HitCounts: 3.1478113E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 3 reads. ============================================== 2020-07-18 09:40:13 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_WT_CM-GSM2054330-Rep1.36mers.unique.bam --out Nkx2-5_WT_CM-GSM2054330-Rep1.36mers.unique.GPS The genome is segmented into 154125 regions for analysis. Running with 1 threads ... ============================================== 2020-07-18 09:40:18 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_WT_CP-GSM2054326-Rep1.36mers.unique.bam --out Tbx5_WT_CP-GSM2054326-Rep1.36mers.unique.GPS ============================================== 2020-07-18 09:40:18 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_NKO_CM-GSM2054339-Rep1.36mers.unique.bam --out Gata4_NKO_CM-GSM2054339-Rep1.36mers.unique.GPS ============================================== 2020-07-18 09:40:18 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_DKO_CP-GSM2054340-Rep1.36mers.unique.bam --out Gata4_DKO_CP-GSM2054340-Rep1.36mers.unique.GPS ============================================== 2020-07-18 09:40:19 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_TKO_CP-GSM2054333-Rep3.36mers.unique.bam --out Gata4_TKO_CP-GSM2054333-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:40:19 ============================================== 2020-07-18 09:40:19 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_TKO_CM-GSM2054335-Rep2.36mers.unique.bam --out Gata4_TKO_CM-GSM2054335-Rep2.36mers.unique.GPS Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_TKO_CM-GSM2054334-Rep2.36mers.unique.bam --out Nkx2-5_TKO_CM-GSM2054334-Rep2.36mers.unique.GPS Original read count stats: _IP Bases: 6751304 HitCounts: 2.3698185E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 5 reads. ============================================== 2020-07-18 09:40:27 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_TKO_CM-GSM2054335-Rep3.36mers.unique.bam --out Gata4_TKO_CM-GSM2054335-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:40:29 ============================================== 2020-07-18 09:40:29 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_NKO_CM-GSM2054339-Rep2.36mers.unique.bam --out Gata4_NKO_CM-GSM2054339-Rep2.36mers.unique.GPS Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_TKO_CP-GSM2054333-Rep2.36mers.unique.bam --out Gata4_TKO_CP-GSM2054333-Rep2.36mers.unique.GPS The genome is segmented into 455184 regions for analysis. Running with 1 threads ... ============================================== 2020-07-18 09:40:31 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_WT_CP-GSM2054327-Rep1.36mers.unique.bam --out Nkx2-5_WT_CP-GSM2054327-Rep1.36mers.unique.GPS ============================================== 2020-07-18 09:40:34 ============================================== 2020-07-18 09:40:34 ============================================== 2020-07-18 09:40:34 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_DKO_CM-GSM2054341-Rep2.36mers.unique.bam --out Gata4_DKO_CM-GSM2054341-Rep2.36mers.unique.GPS Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_DKO_CP-GSM2054340-Rep2.36mers.unique.bam --out Gata4_DKO_CP-GSM2054340-Rep2.36mers.unique.GPS Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_NKO_CP-GSM2054337-Rep2.36mers.unique.bam --out Gata4_NKO_CP-GSM2054337-Rep2.36mers.unique.GPS ============================================== 2020-07-18 09:40:38 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_NKO_CP-GSM2054336-Rep1.36mers.unique.bam --out Tbx5_NKO_CP-GSM2054336-Rep1.36mers.unique.GPS Original read count stats: _IP Bases: 2508579 HitCounts: 3.9740168E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 3 reads. The genome is segmented into 183132 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 3300193 HitCounts: 3.6747764E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 4 reads. ============================================== 2020-07-18 09:40:46 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_WT_CP-GSM2054328-Rep1.36mers.unique.bam --out Gata4_WT_CP-GSM2054328-Rep1.36mers.unique.GPS The genome is segmented into 147199 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 3652758 HitCounts: 2.3932336E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 4 reads. Original read count stats: _IP Bases: 7111605 HitCounts: 1.8786457E7 ============================================== 2020-07-18 09:40:51 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_NKO_CP-GSM2054336-Rep3.36mers.unique.bam --out Tbx5_NKO_CP-GSM2054336-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:40:51 The genome is segmented into 174374 regions for analysis. Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_DKO_CM-GSM2054341-Rep1.36mers.unique.bam --out Gata4_DKO_CM-GSM2054341-Rep1.36mers.unique.GPS Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 5 reads. Original read count stats: _IP Bases: 2661574 HitCounts: 4.308921E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 3 reads. The genome is segmented into 187216 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 4284026 HitCounts: 3.9545177E7 Original read count stats: _IP Bases: 7502552 HitCounts: 2.0122673E7 The genome is segmented into 457660 regions for analysis. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 4 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 5 reads. The genome is segmented into 255039 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 10777076 HitCounts: 2.3185897E7 The genome is segmented into 545551 regions for analysis. At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. ============================================== 2020-07-18 09:41:06 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_WT_CM-GSM2054329-Rep3.36mers.unique.bam --out Tbx5_WT_CM-GSM2054329-Rep3.36mers.unique.GPS Running with 1 threads ... ============================================== 2020-07-18 09:41:06 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_NKO_CP-GSM2054336-Rep2.36mers.unique.bam --out Tbx5_NKO_CP-GSM2054336-Rep2.36mers.unique.GPS Original read count stats: _IP Bases: 5250783 HitCounts: 3.960174E7 ============================================== 2020-07-18 09:41:09 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_TKO_CM-GSM2054335-Rep1.36mers.unique.bam --out Gata4_TKO_CM-GSM2054335-Rep1.36mers.unique.GPS At Poisson p-value 1.0e-03, in a 301bp window, expect 5 reads. ============================================== 2020-07-18 09:41:13 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_WT_CP-GSM2054328-Rep2.36mers.unique.bam --out Gata4_WT_CP-GSM2054328-Rep2.36mers.unique.GPS The genome is segmented into 230866 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 13650956 HitCounts: 2.5352446E7 The genome is segmented into 693886 regions for analysis. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. ============================================== 2020-07-18 09:41:18 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_WT_CM-GSM2054331-Rep3.36mers.unique.bam --out Gata4_WT_CM-GSM2054331-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:41:18 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_NKO_CM-GSM2054338-Rep1.36mers.unique.bam --out Tbx5_NKO_CM-GSM2054338-Rep1.36mers.unique.GPS ============================================== 2020-07-18 09:41:21 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_WT_CM-GSM2054331-Rep2.36mers.unique.bam --out Gata4_WT_CM-GSM2054331-Rep2.36mers.unique.GPS ============================================== 2020-07-18 09:41:22 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_TKO_CP-GSM2054332-Rep3.36mers.unique.bam --out Nkx2-5_TKO_CP-GSM2054332-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:41:26 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_TKO_CP-GSM2054332-Rep2.36mers.unique.bam --out Nkx2-5_TKO_CP-GSM2054332-Rep2.36mers.unique.GPS --------------------------- Events discovered Significant: 9760 Insignificant: 5589 Filtered: 498 Finish binding event prediction: 1.4m Refine read distribution from 2000 binding events. Running with 1 threads ... The genome is segmented into 1359681 regions for analysis. Original read count stats: _IP Bases: 13977192 HitCounts: 1.6487366E7 Running with 1 threads ... ============================================== 2020-07-18 09:41:36 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_TKO_CM-GSM2054334-Rep3.36mers.unique.bam --out Nkx2-5_TKO_CM-GSM2054334-Rep3.36mers.unique.GPS Original read count stats: _IP Bases: 2293720 HitCounts: 4.8286548E7 ============================================== 2020-07-18 09:41:37 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_TKO_CP-GSM2054333-Rep1.36mers.unique.bam --out Gata4_TKO_CP-GSM2054333-Rep1.36mers.unique.GPS At Poisson p-value 1.0e-03, in a 301bp window, expect 3 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. Original read count stats: _IP Bases: 12167897 HitCounts: 2.050948E7 The genome is segmented into 150113 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 4238228 HitCounts: 5.8774468E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 4 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. The genome is segmented into 243158 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 10709452 HitCounts: 2.484476E7 Original read count stats: _IP Bases: 13283282 HitCounts: 3.7154251E7 Original read count stats: At Poisson p-value 1.0e-03, in a 301bp window, expect 6 reads. _IP Bases: 14409364 HitCounts: 2.2580884E7 ============================================== 2020-07-18 09:41:48 ============================================== 2020-07-18 09:41:48 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_WT_CP-GSM2054327-Rep3.36mers.unique.bam --out Nkx2-5_WT_CP-GSM2054327-Rep3.36mers.unique.GPS Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_WT_CM-GSM2054330-Rep2.36mers.unique.bam --out Nkx2-5_WT_CM-GSM2054330-Rep2.36mers.unique.GPS Original read count stats: _IP Bases: 3309790 HitCounts: 4.5140184E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 4 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. Original read count stats: _IP Bases: 8502872 HitCounts: 3.4335006E7 The genome is segmented into 135634 regions for analysis. At Poisson p-value 1.0e-03, in a 301bp window, expect 8 reads. Running with 1 threads ... --------------------------- Events discovered Significant: 5297 Insignificant: 16793 Filtered: 391 Finish binding event prediction: 20.3s Refine read distribution from 2000 binding events. The genome is segmented into 1312070 regions for analysis. The genome is segmented into 768212 regions for analysis. Original read count stats: _IP Bases: 3329792 HitCounts: 4.9063177E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 6 reads. Running with 1 threads ... ============================================== 2020-07-18 09:41:54 ============================================== 2020-07-18 09:41:54 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_WT_CM-GSM2054330-Rep3.36mers.unique.bam --out Nkx2-5_WT_CM-GSM2054330-Rep3.36mers.unique.GPS Running with 1 threads ... Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_NKO_CM-GSM2054338-Rep2.36mers.unique.bam --out Tbx5_NKO_CM-GSM2054338-Rep2.36mers.unique.GPS At Poisson p-value 1.0e-03, in a 301bp window, expect 4 reads. Original read count stats: _IP Bases: 15755750 HitCounts: 3.043046E7 The genome is segmented into 121179 regions for analysis. Running with 1 threads ... The genome is segmented into 915302 regions for analysis. The genome is segmented into 476651 regions for analysis. At Poisson p-value 1.0e-03, in a 301bp window, expect 8 reads. Running with 1 threads ... Running with 1 threads ... The genome is segmented into 1442337 regions for analysis. ============================================== 2020-07-18 09:42:09 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_WT_CP-GSM2054327-Rep2.36mers.unique.bam --out Nkx2-5_WT_CP-GSM2054327-Rep2.36mers.unique.GPS Running with 1 threads ... Original read count stats: _IP Bases: 18338320 HitCounts: 2.9756016E7 The genome is segmented into 1286069 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 10743860 HitCounts: 4.0819126E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. The genome is segmented into 1466470 regions for analysis. Running with 1 threads ... ============================================== 2020-07-18 09:42:19 At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_NKO_CM-GSM2054338-Rep3.36mers.unique.bam --out Tbx5_NKO_CM-GSM2054338-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:42:21 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_TKO_CM-GSM2054334-Rep1.36mers.unique.bam --out Nkx2-5_TKO_CM-GSM2054334-Rep1.36mers.unique.GPS Original read count stats: _IP Bases: 14872252 HitCounts: 2.7394952E7 ============================================== 2020-07-18 09:42:23 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_WT_CP-GSM2054328-Rep3.36mers.unique.bam --out Gata4_WT_CP-GSM2054328-Rep3.36mers.unique.GPS ============================================== 2020-07-18 09:42:24 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_WT_CM-pooled.36mers.unique.bam --out Tbx5_WT_CM-pooled.36mers.unique.GPS --------------------------- Events discovered Significant: 12624 Insignificant: 21773 Filtered: 2395 Finish binding event prediction: 1.5m Refine read distribution from 2000 binding events. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 8 reads. The genome is segmented into 750753 regions for analysis. Original read count stats: _IP Bases: 17857671 HitCounts: 3.3488782E7 Running with 1 threads ... ============================================== 2020-07-18 09:42:30 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_TKO_CM-pooled.36mers.unique.bam --out Nkx2-5_TKO_CM-pooled.36mers.unique.GPS At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. The genome is segmented into 1662015 regions for analysis. Running with 1 threads ... ============================================== 2020-07-18 09:42:40 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_TKO_CP-GSM2054332-Rep1.36mers.unique.bam --out Nkx2-5_TKO_CP-GSM2054332-Rep1.36mers.unique.GPS The genome is segmented into 1546116 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 9380906 HitCounts: 6.2523881E7 ============================================== 2020-07-18 09:42:43 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_WT_CP-GSM2054326-Rep3.36mers.unique.bam --out Tbx5_WT_CP-GSM2054326-Rep3.36mers.unique.GPS Original read count stats: _IP Bases: 12651067 HitCounts: 4.062326E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 6 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. ============================================== 2020-07-18 09:42:52 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_NKO_CM-pooled.36mers.unique.bam --out Gata4_NKO_CM-pooled.36mers.unique.GPS The genome is segmented into 641448 regions for analysis. Original read count stats: _IP Bases: 22152658 HitCounts: 3.4375795E7 Running with 1 threads ... The genome is segmented into 1711098 regions for analysis. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 10 reads. The genome is segmented into 1132942 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 12531404 HitCounts: 4.6487121E7 Original read count stats: _IP Bases: 19893133 HitCounts: 2.8719531E7 Original read count stats: _IP Bases: 17351332 HitCounts: 3.587643E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. Original read count stats: _IP Bases: 6306895 HitCounts: 6.5480298E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 5 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 8 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. The genome is segmented into 283135 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 11978438 HitCounts: 5.3815217E7 The genome is segmented into 943611 regions for analysis. At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. Running with 1 threads ... The genome is segmented into 2005201 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 24427452 HitCounts: 3.8728458E7 ============================================== 2020-07-18 09:43:29 Original read count stats: _IP Bases: 14432430 HitCounts: 5.3969265E7 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_DKO_CP-GSM2054340-Rep3.36mers.unique.bam --out Gata4_DKO_CP-GSM2054340-Rep3.36mers.unique.GPS The genome is segmented into 1003567 regions for analysis. Running with 1 threads ... Original read count stats: _IP Bases: 20511613 HitCounts: 3.8217765E7 --------------------------- Events discovered Significant: 4376 Insignificant: 66589 Filtered: 786 Finish binding event prediction: 1.1m Refine read distribution from 2000 binding events. Original read count stats: _IP Bases: 11426591 HitCounts: 6.2029081E7 --------------------------- Events discovered Significant: 28392 Insignificant: 5747 Filtered: 5328 Finish binding event prediction: 3.3m Refine read distribution from 2000 binding events. Running with 1 threads ... ============================================== 2020-07-18 09:43:33 Original read count stats: _IP Bases: 19472573 HitCounts: 3.9593795E7 ============================================== 2020-07-18 09:43:34 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_NKO_CP-pooled.36mers.unique.bam --out Gata4_NKO_CP-pooled.36mers.unique.GPS Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_DKO_CM-pooled.36mers.unique.bam --out Gata4_DKO_CM-pooled.36mers.unique.GPS At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 11 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. The genome is segmented into 2096740 regions for analysis. Original read count stats: _IP Bases: 9839819 HitCounts: 8.9412634E7 Running with 1 threads ... The genome is segmented into 2047467 regions for analysis. Original read count stats: _IP Bases: 1568557 HitCounts: 9.007949E7 Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 3 reads. The genome is segmented into 71954 regions for analysis. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. Original read count stats: _IP Bases: 16091911 HitCounts: 5.3208736E7 The genome is segmented into 385709 regions for analysis. Running with 1 threads ... The genome is segmented into 862599 regions for analysis. Running with 1 threads ... The genome is segmented into 412922 regions for analysis. Original read count stats: _IP Bases: 9413143 HitCounts: 7.3408878E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 6 reads. Original read count stats: _IP Bases: 11015141 HitCounts: 6.8618792E7 The genome is segmented into 2258724 regions for analysis. Running with 1 threads ... The genome is segmented into 2042453 regions for analysis. At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. The genome is segmented into 2213538 regions for analysis. Running with 1 threads ... Running with 1 threads ... ============================================== 2020-07-18 09:44:02 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_WT_CM-pooled.36mers.unique.bam --out Gata4_WT_CM-pooled.36mers.unique.GPS The genome is segmented into 1073082 regions for analysis. Running with 1 threads ... The genome is segmented into 822851 regions for analysis. Running with 1 threads ... The genome is segmented into 680731 regions for analysis. Running with 1 threads ... ============================================== 2020-07-18 09:44:25 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_NKO_CP-pooled.36mers.unique.bam --out Tbx5_NKO_CP-pooled.36mers.unique.GPS Original read count stats: _IP Bases: 17913812 HitCounts: 6.0636451E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. The genome is segmented into 1851223 regions for analysis. --------------------------- Events discovered Significant: 22460 Insignificant: 989 Filtered: 2549 Finish binding event prediction: 3.9m Refine read distribution from 2000 binding events. Running with 1 threads ... Running with 1 threads ... --------------------------- Events discovered Significant: 20249 Insignificant: 1677 Filtered: 1217 Finish binding event prediction: 1.6m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 10724 Insignificant: 1055 Filtered: 1192 Finish binding event prediction: 4.2m Refine read distribution from 2000 binding events. Running with 1 threads ... Original read count stats: _IP Bases: 27293700 HitCounts: 5.8158154E7 Original read count stats: _IP Bases: 31524462 HitCounts: 7.6092949E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 11 reads. --------------------------- Events discovered Significant: 16236 Insignificant: 1824 Filtered: 1934 Finish binding event prediction: 5.1m Refine read distribution from 2000 binding events. Running with 1 threads ... Original read count stats: _IP Bases: 33457952 HitCounts: 4.8304217E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 12 reads. --------------------------- Events discovered Significant: 20069 Insignificant: 3526 Filtered: 2850 Finish binding event prediction: 4.7m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 36017 Insignificant: 15200 Filtered: 5915 Finish binding event prediction: 5.0m Running with 1 threads ... Refine read distribution from 2000 binding events. Running with 1 threads ... Original read count stats: _IP Bases: 18473861 HitCounts: 9.9919769E7 --------------------------- Events discovered Significant: 17573 Insignificant: 1802 Filtered: 1949 Finish binding event prediction: 3.9m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 3364 Insignificant: 38397 Filtered: 141 Finish binding event prediction: 30.6s Refine read distribution from 2000 binding events. At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. At Poisson p-value 1.0e-03, in a 301bp window, expect 13 reads. ============================================== 2020-07-18 09:45:56 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_WT_CP-pooled.36mers.unique.bam --out Tbx5_WT_CP-pooled.36mers.unique.GPS The genome is segmented into 3323630 regions for analysis. Running with 1 threads ... The genome is segmented into 2573529 regions for analysis. Running with 1 threads ... --------------------------- Events discovered Significant: 23745 Insignificant: 1692 Filtered: 1814 Finish binding event prediction: 5.4m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 19769 Insignificant: 39462 Filtered: 947 Finish binding event prediction: 2.6m Refine read distribution from 2000 binding events. The genome is segmented into 2874767 regions for analysis. The genome is segmented into 1971524 regions for analysis. Running with 1 threads ... Running with 1 threads ... --------------------------- Events discovered Significant: 15772 Insignificant: 3425 Filtered: 2995 Finish binding event prediction: 4.7m Refine read distribution from 2000 binding events. Running with 1 threads ... Original read count stats: _IP Bases: 35476186 HitCounts: 9.1282896E7 At Poisson p-value 1.0e-03, in a 301bp window, expect 13 reads. The genome is segmented into 3516721 regions for analysis. ============================================== 2020-07-18 09:47:13 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_WT_CM-pooled.36mers.unique.bam --out Nkx2-5_WT_CM-pooled.36mers.unique.GPS --------------------------- Events discovered Significant: 14687 Insignificant: 10898 Filtered: 57 Finish binding event prediction: 1.4m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 25807 Insignificant: 35908 Filtered: 172 Finish binding event prediction: 1.5m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 24733 Insignificant: 17058 Filtered: 359 Finish binding event prediction: 3.0m Refine read distribution from 2000 binding events. Original read count stats: _IP Bases: 33285449 HitCounts: 1.0969021E8 --------------------------- Events discovered Significant: 36321 Insignificant: 11340 Filtered: 5728 Finish binding event prediction: 6.3m Refine read distribution from 2000 binding events. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 13 reads. --------------------------- Events discovered Significant: 5578 Insignificant: 331 Filtered: 753 Finish binding event prediction: 6.0m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 9182 Insignificant: 721 Filtered: 1740 Finish binding event prediction: 6.0m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 18051 Insignificant: 18166 Filtered: 61 Finish binding event prediction: 2.5m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 40932 Insignificant: 1777 Filtered: 2575 Finish binding event prediction: 7.1m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 19494 Insignificant: 15951 Filtered: 31 Finish binding event prediction: 2.8m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 20174 Insignificant: 14856 Filtered: 157 Finish binding event prediction: 2.3m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 8101 Insignificant: 414 Filtered: 865 Finish binding event prediction: 5.9m Refine read distribution from 2000 binding events. Running with 1 threads ... The genome is segmented into 3271113 regions for analysis. Running with 1 threads ... --------------------------- Events discovered Significant: 8580 Insignificant: 760 Filtered: 1766 Finish binding event prediction: 7.1m Refine read distribution from 2000 binding events. Original read count stats: _IP Bases: 40371361 HitCounts: 9.7606388E7 Running with 1 threads ... Original read count stats: _IP Bases: 46249291 HitCounts: 1.00014527E8 At Poisson p-value 1.0e-03, in a 301bp window, expect 15 reads. --------------------------- Events discovered Significant: 9627 Insignificant: 18266 Filtered: 368 Finish binding event prediction: 3.7m Refine read distribution from 2000 binding events. At Poisson p-value 1.0e-03, in a 301bp window, expect 16 reads. Original read count stats: _IP Bases: 31139630 HitCounts: 1.16112435E8 The genome is segmented into 3846345 regions for analysis. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 12 reads. The genome is segmented into 3690843 regions for analysis. Running with 1 threads ... ============================================== 2020-07-18 09:49:40 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_WT_CP-pooled.36mers.unique.bam --out Gata4_WT_CP-pooled.36mers.unique.GPS --------------------------- Events discovered Significant: 17273 Insignificant: 675 Filtered: 2997 Finish binding event prediction: 8.4m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 41425 Insignificant: 2310 Filtered: 2512 Finish binding event prediction: 7.9m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 25307 Insignificant: 41883 Filtered: 174 Finish binding event prediction: 2.0m Refine read distribution from 2000 binding events. The genome is segmented into 3472184 regions for analysis. Running with 1 threads ... --------------------------- Events discovered Significant: 16816 Insignificant: 511 Filtered: 2033 Finish binding event prediction: 5.9m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 17622 Insignificant: 452 Filtered: 1910 Finish binding event prediction: 7.3m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 22468 Insignificant: 384 Filtered: 2061 Finish binding event prediction: 7.9m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 13227 Insignificant: 32729 Filtered: 367 Finish binding event prediction: 4.3m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 47392 Insignificant: 4133 Filtered: 5285 Finish binding event prediction: 10.1m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 19069 Insignificant: 623 Filtered: 3065 Finish binding event prediction: 8.8m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 31051 Insignificant: 547 Filtered: 1381 Finish binding event prediction: 9.4m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 36705 Insignificant: 10345 Filtered: 123 Finish binding event prediction: 3.3m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 21653 Insignificant: 1105 Filtered: 4485 Finish binding event prediction: 9.9m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 15546 Insignificant: 595 Filtered: 2204 Finish binding event prediction: 8.5m Refine read distribution from 2000 binding events. Running with 1 threads ... ============================================== 2020-07-18 09:52:02 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_TKO_CM-pooled.36mers.unique.bam --out Gata4_TKO_CM-pooled.36mers.unique.GPS --------------------------- Events discovered Significant: 24770 Insignificant: 7581 Filtered: 207 Finish binding event prediction: 2.3m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 46839 Insignificant: 1551 Filtered: 5410 Finish binding event prediction: 9.1m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 10899 Insignificant: 1294 Filtered: 2127 Finish binding event prediction: 10.4m Refine read distribution from 2000 binding events. Running with 1 threads ... ============================================== 2020-07-18 09:52:35 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_TKO_CP-pooled.36mers.unique.bam --out Gata4_TKO_CP-pooled.36mers.unique.GPS --------------------------- Events discovered Significant: 13901 Insignificant: 485 Filtered: 2490 Finish binding event prediction: 9.9m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 5719 Insignificant: 631 Filtered: 831 Finish binding event prediction: 9.2m Refine read distribution from 2000 binding events. Running with 1 threads ... Running with 1 threads ... Original read count stats: _IP Bases: 10957449 HitCounts: 1.38059813E8 --------------------------- Events discovered Significant: 27791 Insignificant: 943 Filtered: 1665 Finish binding event prediction: 10.5m Refine read distribution from 2000 binding events. At Poisson p-value 1.0e-03, in a 301bp window, expect 7 reads. Running with 1 threads ... --------------------------- Events discovered Significant: 15897 Insignificant: 825 Filtered: 740 Finish binding event prediction: 9.2m Refine read distribution from 2000 binding events. Running with 1 threads ... The genome is segmented into 700888 regions for analysis. Running with 1 threads ... --------------------------- Events discovered Significant: 7250 Insignificant: 5760 Filtered: 15 Finish binding event prediction: 5.4m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 15481 Insignificant: 580 Filtered: 2818 Finish binding event prediction: 11.4m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 14643 Insignificant: 10358 Filtered: 81 Finish binding event prediction: 5.8m Refine read distribution from 2000 binding events. Original read count stats: _IP Bases: 59965482 HitCounts: 1.22022433E8 --------------------------- Events discovered Significant: 27439 Insignificant: 7112 Filtered: 32 Finish binding event prediction: 4.6m Refine read distribution from 2000 binding events. At Poisson p-value 1.0e-03, in a 301bp window, expect 21 reads. --------------------------- Events discovered Significant: 13662 Insignificant: 12126 Filtered: 37 Finish binding event prediction: 6.0m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 18270 Insignificant: 6129 Filtered: 43 Finish binding event prediction: 4.5m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 10728 Insignificant: 563 Filtered: 2477 Finish binding event prediction: 10.9m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 16506 Insignificant: 330 Filtered: 1840 Finish binding event prediction: 9.8m Refine read distribution from 2000 binding events. Running with 1 threads ... Original read count stats: _IP Bases: 17672176 HitCounts: 1.38873385E8 At Poisson p-value 1.0e-03, in a 301bp window, expect 10 reads. --------------------------- Events discovered Significant: 9474 Insignificant: 6110 Filtered: 37 Finish binding event prediction: 6.3m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 22458 Insignificant: 4772 Filtered: 22 Finish binding event prediction: 4.6m Refine read distribution from 2000 binding events. The genome is segmented into 3933530 regions for analysis. Running with 1 threads ... The genome is segmented into 1322555 regions for analysis. Running with 1 threads ... ============================================== 2020-07-18 09:55:15 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_WT_CP-pooled.36mers.unique.bam --out Nkx2-5_WT_CP-pooled.36mers.unique.GPS Original read count stats: _IP Bases: 49887801 HitCounts: 1.29979242E8 --------------------------- Events discovered Significant: 15815 Insignificant: 421 Filtered: 2878 Finish binding event prediction: 11.7m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 29019 Insignificant: 7163 Filtered: 109 Finish binding event prediction: 4.3m Refine read distribution from 2000 binding events. At Poisson p-value 1.0e-03, in a 301bp window, expect 17 reads. Running with 1 threads ... --------------------------- Events discovered Significant: 20026 Insignificant: 7555 Filtered: 45 Finish binding event prediction: 5.7m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 26503 Insignificant: 1203 Filtered: 5769 Finish binding event prediction: 14.1m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 37427 Insignificant: 11828 Filtered: 121 Finish binding event prediction: 5.2m Refine read distribution from 2000 binding events. The genome is segmented into 4021306 regions for analysis. Running with 1 threads ... --------------------------- Events discovered Significant: 14334 Insignificant: 503 Filtered: 2652 Finish binding event prediction: 10.1m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 33147 Insignificant: 8578 Filtered: 117 Finish binding event prediction: 4.2m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 35223 Insignificant: 901 Filtered: 2300 Finish binding event prediction: 13.6m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 20137 Insignificant: 8272 Filtered: 106 Finish binding event prediction: 5.6m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 13337 Insignificant: 13452 Filtered: 26 Finish binding event prediction: 5.3m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 25952 Insignificant: 9388 Filtered: 29 Finish binding event prediction: 7.1m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 14033 Insignificant: 9969 Filtered: 45 Finish binding event prediction: 5.2m Refine read distribution from 2000 binding events. Original read count stats: _IP Bases: 35390265 HitCounts: 1.40843106E8 --------------------------- Events discovered Significant: 28009 Insignificant: 15176 Filtered: 117 Finish binding event prediction: 5.7m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 30645 Insignificant: 16081 Filtered: 249 Finish binding event prediction: 7.6m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 23586 Insignificant: 536 Filtered: 3468 Finish binding event prediction: 15.5m Refine read distribution from 2000 binding events. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 17 reads. The genome is segmented into 3194189 regions for analysis. Running with 1 threads ... --------------------------- Events discovered Significant: 6712 Insignificant: 8998 Filtered: 250 Finish binding event prediction: 7.1m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 23044 Insignificant: 9440 Filtered: 24 Finish binding event prediction: 7.4m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 25314 Insignificant: 492 Filtered: 4791 Finish binding event prediction: 17.5m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 19129 Insignificant: 5237 Filtered: 16 Finish binding event prediction: 6.4m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 36073 Insignificant: 886 Filtered: 3342 Finish binding event prediction: 8.8m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 28054 Insignificant: 16655 Filtered: 18 Finish binding event prediction: 8.5m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 32896 Insignificant: 9444 Filtered: 67 Finish binding event prediction: 5.5m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 20596 Insignificant: 10474 Filtered: 14 Finish binding event prediction: 7.9m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 37405 Insignificant: 8901 Filtered: 7 Finish binding event prediction: 6.9m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 28711 Insignificant: 485 Filtered: 5463 Finish binding event prediction: 19.8m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 21384 Insignificant: 7664 Filtered: 13 Finish binding event prediction: 8.6m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 43652 Insignificant: 494 Filtered: 7026 Finish binding event prediction: 18.5m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 21986 Insignificant: 11386 Filtered: 83 Finish binding event prediction: 8.2m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 68532 Insignificant: 903 Filtered: 9957 Finish binding event prediction: 20.6m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 14752 Insignificant: 442 Filtered: 1652 Finish binding event prediction: 20.0m Refine read distribution from 2000 binding events. Running with 1 threads ... ============================================== 2020-07-18 10:06:18 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Tbx5_NKO_CM-pooled.36mers.unique.bam --out Tbx5_NKO_CM-pooled.36mers.unique.GPS --------------------------- Events discovered Significant: 30556 Insignificant: 515 Filtered: 5142 Finish binding event prediction: 19.4m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 18714 Insignificant: 425 Filtered: 1932 Finish binding event prediction: 16.7m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 26999 Insignificant: 6230 Filtered: 38 Finish binding event prediction: 8.9m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 41723 Insignificant: 12407 Filtered: 104 Finish binding event prediction: 6.2m Refine read distribution from 2000 binding events. ============================================== 2020-07-18 10:09:11 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Gata4_DKO_CP-pooled.36mers.unique.bam --out Gata4_DKO_CP-pooled.36mers.unique.GPS --------------------------- Events discovered Significant: 33090 Insignificant: 458 Filtered: 6127 Finish binding event prediction: 22.6m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 39927 Insignificant: 9898 Filtered: 32 Finish binding event prediction: 10.8m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 62220 Insignificant: 427 Filtered: 5224 Finish binding event prediction: 28.2m Refine read distribution from 2000 binding events. Running with 1 threads ... Original read count stats: _IP Bases: 58060139 HitCounts: 1.51567166E8 At Poisson p-value 1.0e-03, in a 301bp window, expect 19 reads. Original read count stats: _IP Bases: 37383407 HitCounts: 1.53324288E8 The genome is segmented into 4041964 regions for analysis. Running with 1 threads ... At Poisson p-value 1.0e-03, in a 301bp window, expect 14 reads. The genome is segmented into 3427131 regions for analysis. Running with 1 threads ... --------------------------- Events discovered Significant: 73241 Insignificant: 922 Filtered: 6596 Finish binding event prediction: 30.3m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 49825 Insignificant: 3906 Filtered: 41 Finish binding event prediction: 10.5m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 45736 Insignificant: 8114 Filtered: 46 Finish binding event prediction: 12.1m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 16084 Insignificant: 13129 Filtered: 17 Finish binding event prediction: 11.4m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 53672 Insignificant: 10309 Filtered: 53 Finish binding event prediction: 14.2m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 28241 Insignificant: 484 Filtered: 2809 Finish binding event prediction: 29.8m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 41875 Insignificant: 558 Filtered: 9689 Finish binding event prediction: 33.4m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 40495 Insignificant: 7094 Filtered: 47 Finish binding event prediction: 13.8m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 20981 Insignificant: 7601 Filtered: 34 Finish binding event prediction: 14.2m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 47351 Insignificant: 5211 Filtered: 202 Finish binding event prediction: 9.4m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 62325 Insignificant: 514 Filtered: 3695 Finish binding event prediction: 28.6m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 29547 Insignificant: 388 Filtered: 5073 Finish binding event prediction: 27.8m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 32135 Insignificant: 1814 Filtered: 124 Finish binding event prediction: 12.3m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 43794 Insignificant: 5816 Filtered: 73 Finish binding event prediction: 14.3m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 55464 Insignificant: 8055 Filtered: 205 Finish binding event prediction: 9.6m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 22133 Insignificant: 514 Filtered: 4377 Finish binding event prediction: 21.7m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 39065 Insignificant: 599 Filtered: 7815 Finish binding event prediction: 46.6m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 30359 Insignificant: 3790 Filtered: 58 Finish binding event prediction: 18.4m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 63478 Insignificant: 6900 Filtered: 15 Finish binding event prediction: 20.9m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 73565 Insignificant: 349 Filtered: 4062 Finish binding event prediction: 57.8m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 43391 Insignificant: 5046 Filtered: 39 Finish binding event prediction: 18.3m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 40881 Insignificant: 15458 Filtered: 35 Finish binding event prediction: 16.5m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 29828 Insignificant: 680 Filtered: 4767 Finish binding event prediction: 41.8m Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 29418 Insignificant: 1270 Filtered: 295 Finish binding event prediction: 18.1m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 70622 Insignificant: 999 Filtered: 16448 Finish binding event prediction: 1.1h Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 71376 Insignificant: 13713 Filtered: 37 Finish binding event prediction: 30.8m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 43895 Insignificant: 7731 Filtered: 49 Finish binding event prediction: 28.5m Refine read distribution from 2000 binding events. ============================================== 2020-07-18 11:39:45 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_TKO_CP-pooled.36mers.unique.bam --out Nkx2-5_TKO_CP-pooled.36mers.unique.GPS Original read count stats: _IP Bases: 17478109 HitCounts: 1.62822153E8 At Poisson p-value 1.0e-03, in a 301bp window, expect 9 reads. The genome is segmented into 1536774 regions for analysis. Running with 2 threads ... --------------------------- Events discovered Significant: 93058 Insignificant: 6654 Filtered: 62 Finish binding event prediction: 47.0m Refine read distribution from 2000 binding events. --------------------------- Events discovered Significant: 53708 Insignificant: 688 Filtered: 3913 Finish binding event prediction: 10.0m Refine read distribution from 2000 binding events. Running with 2 threads ... --------------------------- Events discovered Significant: 39341 Insignificant: 7505 Filtered: 257 Finish binding event prediction: 5.8m Refine read distribution from 2000 binding events. ============================================== 2020-07-18 12:49:11 Options: --f SAM --d /oak/stanford/groups/akundaje/marinovg/programs/gem.v3.2/Read_Distribution_ChIP-exo.txt --expt Nkx2-5_WT_CP-pooled.36mers.unique.bam --out Nkx2-5_WT_CP-pooled.36mers.unique.GPS Original read count stats: _IP Bases: 35390265 HitCounts: 1.40843106E8 At Poisson p-value 1.0e-03, in a 301bp window, expect 17 reads. The genome is segmented into 3194189 regions for analysis. Running with 1 threads ... --------------------------- Events discovered Significant: 92263 Insignificant: 663 Filtered: 7396 Finish binding event prediction: 3.4h Refine read distribution from 2000 binding events. Running with 1 threads ... --------------------------- Events discovered Significant: 42348 Insignificant: 1927 Filtered: 336 Finish binding event prediction: 1.0h Refine read distribution from 2000 binding events.