In [1]:
# Parameters
data_name = "Lhx5"
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 11:17:51,476 [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)
Lhx5: Motif: M00445_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Lhx5: #17

Cell typeModiscoHomer
wES;limb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0110361

/

Pattern: metacluster_0/pattern_7

Significance: 0.042116100000000004

Pattern: motif4.motif

Significance: 0.00869969

wES;Fr_lmb;E11.5;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.014403899999999999

/

Pattern: metacluster_1/pattern_13

Significance: 0.00925645

Pattern: motif5.motif

Significance: 0.0267976

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.0555462

/

Pattern: metacluster_0/pattern_3

Significance: 0.00816615

Pattern: motif3.motif

Significance: 0.00115597

wES;FaceP;E11.5;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.0372844

/

Pattern: metacluster_1/pattern_4

Significance: 0.000948708

Pattern: motif3.motif

Significance: 0.00149389

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00947048

Pattern: motif9.motif

Significance: 0.0190411

wES.CRNL_NRL_CRST;E10.5;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.05230599999999999

/

Pattern: metacluster_0/pattern_7

Significance: 0.050416300000000004

Pattern: motif3.motif

Significance: 0.0104428

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0153072

Pattern: motif2.motif

Significance: 0.045795499999999996

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.0102495

/

Pattern: metacluster_0/pattern_15

Significance: 0.0401215

Pattern: motif3.motif

Significance: 0.059701800000000006

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0029430999999999997

Pattern: motif13.motif

Significance: 0.0319059

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0154988

Pattern: motif4.motif

Significance: 0.0212239

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.0113272

Pattern: motif2.motif

Significance: 0.053124199999999996

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.0120087

Pattern: motif2.motif

Significance: 0.0459115

MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00373535

Pattern: motif6.motif

Significance: 0.0153705

MN1;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.00339187

Pattern: motif9.motif

Significance: 0.0224951

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0239296

/

Pattern: metacluster_0/pattern_8

Significance: 0.00847953

Pattern: motif3.motif

Significance: 0.0105771

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.00829087

Pattern: motif14.motif

Significance: 0.00569932

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.0103199

Pattern: motif2.motif

Significance: 0.0404796

Unique Cell types only TF-MoDISco finds Lhx5: #27

Cell typeModiscoHomer
wES;limb;E14.5;D;En

Pattern: metacluster_1/pattern_1

Significance: 0.0287106

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

Pattern: metacluster_0/pattern_7

Significance: 0.0309658

/

Pattern: metacluster_0/pattern_8

Significance: 0.0397165

Absent
NIH3T3;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0159248

Absent
3T3-L1;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.05251619999999999

Absent
BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0589087

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

Pattern: metacluster_0/pattern_16

Significance: 0.012552299999999999

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

Pattern: metacluster_0/pattern_21

Significance: 0.00014691700000000002

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

Pattern: metacluster_0/pattern_14

Significance: 0.00335432

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

Pattern: metacluster_0/pattern_21

Significance: 0.00401963

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

Pattern: metacluster_0/pattern_22

Significance: 0.0257943

/

Pattern: metacluster_0/pattern_25

Significance: 0.00285935

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

Pattern: metacluster_0/pattern_20

Significance: 0.00837683

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

Pattern: metacluster_0/pattern_21

Significance: 0.00201921

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

Pattern: metacluster_0/pattern_18

Significance: 0.000925113

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

Pattern: metacluster_0/pattern_6

Significance: 0.010894899999999999

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0503588

Absent
npES;ZHBTC4;Brg1fl_fl;untreat;A;GEO

Pattern: metacluster_1/pattern_21

Significance: 0.0355852

Absent
NIH3T3_FBROBLST;D;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0332898

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.0414254

Absent
NIH3T3_FBROBLST;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0201271

Absent
FBRBLST;8wks;D;En

Pattern: metacluster_1/pattern_15

Significance: 0.0554293

Absent
ES;E14;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.038042599999999996

Absent
ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0584442

Absent
CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00669823

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

Pattern: metacluster_0/pattern_5

Significance: 0.021066099999999997

Absent
Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.0245457

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.00483101

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

Pattern: metacluster_0/pattern_6

Significance: 0.00768383

Absent
Unique Cell types only Homer finds Lhx5: #1

Cell typeModiscoHomer
Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.0353452