In [1]:
# Parameters
data_name = "Tcf7"
task_idxs = "0-213,216-278"
homer_root = "/srv/scratch/msharmin/mouse_hem/with_tfd/full_mouse50/Naive_scans"
modisco_root = "/srv/scratch/msharmin/mouse_hem/with_tfd/full_mouse50/Naive_modisco2019"
overwrite = False
In [2]:
from matlas.reports import collect_motifDB_to_be_displayed, display_comparative_cell_types

load data from labcluster

Using TensorFlow backend.
2019-08-23 11:42:38,889 [WARNING] git-lfs not installed
In [3]:
homer_matches, modisco_matches = collect_motifDB_to_be_displayed(task_idxs, homer_root, modisco_root, 
                                                              overwrite=False)

TF-MoDISco is using the TensorFlow backend.
In [4]:
display_comparative_cell_types(data_name, homer_matches, modisco_matches)
Tcf7: Motif: M00193_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Tcf7: #5

Cell typeModiscoHomer
CD4+CD8-TCR+CD69-CD24-CD25-;B2defM;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.013709299999999999

Pattern: motif17.motif

Significance: 0.050937199999999995

ES;E14;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.0437896

/

Pattern: metacluster_1/pattern_10

Significance: 0.00942499

Pattern: motif7.motif

Significance: 0.0122812

npES;3rd_Rhmbmr_delA;E8.5;A;GEO

Pattern: metacluster_0/pattern_17

Significance: 0.0204259

Pattern: motif3.motif

Significance: 0.0540056

wES;3rd_Rhmbmr;E8.5;A;GEO

Pattern: metacluster_0/pattern_1

Significance: 0.0226707

/

Pattern: metacluster_0/pattern_17

Significance: 0.0381952

Pattern: motif2.motif

Significance: 0.056221400000000005

npES;3rd_Rhmbmr_delC;E8.5;A;GEO

Pattern: metacluster_0/pattern_1

Significance: 0.0215643

/

Pattern: metacluster_0/pattern_16

Significance: 0.0442209

Pattern: motif3.motif

Significance: 0.0527891

Unique Cell types only TF-MoDISco finds Tcf7: #59

Cell typeModiscoHomer
naiveCD8;A;CL

Pattern: metacluster_0/pattern_13

Significance: 0.00809135

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.0127162

Absent
wES;limb;E11.5;D;En

Pattern: metacluster_0/pattern_16

Significance: 0.020924599999999998

Absent
wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_11

Significance: 0.020442500000000002

/

Pattern: metacluster_0/pattern_15

Significance: 0.017651499999999997

/

Pattern: metacluster_0/pattern_22

Significance: 0.0189426

/

Pattern: metacluster_0/pattern_23

Significance: 0.0348624

Absent
wES;NRL_Tube;E11.5;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.0322988

Absent
aB_LPS+IL21;A;CL

Pattern: metacluster_1/pattern_0

Significance: 0.0159238

Absent
Tfh_LCMV;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.05855930000000001

/

Pattern: metacluster_1/pattern_18

Significance: 0.00513962

Absent
aNonTfh;A;CL

Pattern: metacluster_1/pattern_18

Significance: 0.0158412

Absent
naiveT;CD4+_CD44-_CD62L-_CD25-;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.00825144

Absent
naiveT_mut;CD4+_CD44-_CD62L-_CD25-;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.0324822

Absent
largeDPprecrsr;CD4+CD8+CD69-;A;CL

Pattern: metacluster_1/pattern_17

Significance: 0.0121018

Absent
smallDPprecrsor;CD4+CD8+CD69-;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.000251252

/

Pattern: metacluster_1/pattern_16

Significance: 0.0586498

Absent
CD4+CD8intTCR+CD69+CD24+;B2defM;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.025640499999999997

/

Pattern: metacluster_1/pattern_14

Significance: 0.0212822

Absent
CD4+CD8-TCR+CD69+CD24+CD25-;B2defM;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.00621104

Absent
CD4+CD8-TCR+CD25+Foxp3-;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.00712264

Absent
CD4+CD8-TCR+CD25-Foxp3+;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.00694456

Absent
CD4+CD8-TCR+CD25+Foxp3+;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.04833540000000001

Absent
DP3b;A;CL

Pattern: metacluster_1/pattern_8

Significance: 0.00827321

Absent
ISP;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.00790514

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.0379025

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.055171300000000006

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.019056

Absent
ES;J1;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0451115

Absent
ES;F1216;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.0572765

Absent
ES;129SV_Jae_C57BL6J;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.0401032

Absent
CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_15

Significance: 0.00562835

Absent
T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.040009300000000005

Absent
T_MLD;TCR_SV40-I_CD8+;D28;A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.0386943

Absent
memT_tmrD;TCR_SV40-I_CD8+;D14;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.058513800000000005

Absent
npES;5th_Rhmbmr_delC;E8.5;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 0.0351866

/

Pattern: metacluster_1/pattern_8

Significance: 0.0115101

Absent
wES;5th_Rhmbmr;E9.5;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.0346731

/

Pattern: metacluster_0/pattern_10

Significance: 0.0350813

Absent
wES;5th_Rhmbmr;E8.5;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.0363508

Absent
npES;5th_Rhmbmr_delA;E8.5;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.0301173

/

Pattern: metacluster_0/pattern_17

Significance: 0.0173932

Absent
wES;posterior;1;E9.5;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.021544999999999998

Absent
wES;posterior;2;E9.5;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.023950799999999998

/

Pattern: metacluster_0/pattern_15

Significance: 0.019824

Absent
wES;posterior;1;E8.5;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.05543240000000001

/

Pattern: metacluster_0/pattern_24

Significance: 0.0449263

Absent
npES;posterior_delA;E8.5;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.023662700000000002

/

Pattern: metacluster_0/pattern_13

Significance: 0.00947147

Absent
npES;posterior_delC;E8.5;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.0237023

/

Pattern: metacluster_0/pattern_21

Significance: 0.027975999999999997

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_22

Significance: 0.0364523

/

Pattern: metacluster_0/pattern_23

Significance: 0.0340332

Absent
wES.CRNL_NRL_CRST;E10.5;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 0.020005099999999998

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0243761

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.0133885

Absent
ES;JM8.N4;Asynch;A;GEO

Pattern: metacluster_0/pattern_10

Significance: 0.0584967

Absent
ES;ZhBTc4;1;D;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0512534

Absent
ES;ZhBTc4;2;D;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.027167300000000002

Absent
apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.00778413

Absent
wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.054702

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_23

Significance: 0.00178157

Absent
wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_5

Significance: 0.043492

Absent
wES;MSDRM;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.051196

/

Pattern: metacluster_0/pattern_11

Significance: 0.0506498

Absent
wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_8

Significance: 0.028085200000000005

Absent
Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.0220601

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.025923500000000002

Absent
wES;Hnd_BRN;E11.5;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.027972000000000004

Absent
wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_4

Significance: 0.034761400000000005

Absent
wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.017294099999999996

Absent
wES;Md_BRN;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0524634

Absent
Md_BRN;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.022415400000000002

Absent
wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0180127

Absent
Unique Cell types only Homer finds Tcf7: #1

Cell typeModiscoHomer
NPC;Ch13;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.0599196