In [1]:
# Parameters
data_name = "Nanog"
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 11:21:53,936 [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)
Nanog: Motif: M09176_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Nanog: #28

Cell typeModiscoHomer
ENDRM_ESD;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 3.6739299999999996e-05

/

Pattern: metacluster_1/pattern_5

Significance: 0.000111945

Pattern: motif9.motif

Significance: 4.2072799999999995e-05

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

Pattern: metacluster_0/pattern_1

Significance: 0.0163098

/

Pattern: metacluster_0/pattern_17

Significance: 0.0059802

Pattern: motif3.motif

Significance: 0.0380423

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

Pattern: metacluster_0/pattern_3

Significance: 0.00513082

/

Pattern: metacluster_0/pattern_17

Significance: 0.00111706

Pattern: motif3.motif

Significance: 0.0407321

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

Pattern: metacluster_1/pattern_4

Significance: 0.0121992

/

Pattern: metacluster_1/pattern_19

Significance: 0.000569449

Pattern: motif6.motif

Significance: 0.0279811

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

Pattern: metacluster_0/pattern_3

Significance: 0.0136634

/

Pattern: metacluster_0/pattern_14

Significance: 0.00167809

Pattern: motif3.motif

Significance: 0.0247432

wES.CRNL_NRL_CRST;E10.5;A;GEO

Pattern: metacluster_0/pattern_16

Significance: 0.0210487

/

Pattern: metacluster_0/pattern_18

Significance: 0.0234615

Pattern: motif3.motif

Significance: 0.030264199999999998

NPC;F129;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.013161700000000002

/

Pattern: metacluster_1/pattern_20

Significance: 0.030201599999999995

Pattern: motif14.motif

Significance: 0.00723855

NPC;Ch13;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.024343

/

Pattern: metacluster_1/pattern_13

Significance: 0.00184392

Pattern: motif4.motif

Significance: 0.00961532

iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.00304568

/

Pattern: metacluster_1/pattern_18

Significance: 0.00336797

/

Pattern: metacluster_1/pattern_24

Significance: 0.057413599999999995

Pattern: motif3.motif

Significance: 0.04341969999999999

ES;E14;A;CL

Pattern: metacluster_1/pattern_2

Significance: 7.37324e-09

/

Pattern: metacluster_1/pattern_3

Significance: 0.00023442099999999998

Pattern: motif3.motif

Significance: 3.0899200000000004e-06

/

Pattern: motif7.motif

Significance: 0.00011410200000000001

ES;ZhBTc4;untreated;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.000162922

/

Pattern: metacluster_1/pattern_5

Significance: 5.619690000000001e-10

Pattern: motif6.motif

Significance: 1.63952e-05

npES;ZHBTC4;Brg1fl_fl;untreat;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 2.07631e-09

/

Pattern: metacluster_1/pattern_11

Significance: 0.00508814

/

Pattern: metacluster_1/pattern_21

Significance: 0.0346939

Pattern: motif3.motif

Significance: 6.476359999999999e-06

ES;JM8.N4;Mitosis;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 4.41684e-06

/

Pattern: metacluster_0/pattern_7

Significance: 1.0491300000000001e-07

Pattern: motif18.motif

Significance: 6.098e-06

ES;ZhBTc4;1;D;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.011224799999999998

/

Pattern: metacluster_1/pattern_18

Significance: 0.00120307

Pattern: motif20.motif

Significance: 0.0037567

ES;ZhBTc4;2;D;GEO

Pattern: metacluster_1/pattern_2

Significance: 1.22874e-10

/

Pattern: metacluster_1/pattern_5

Significance: 0.0013217

Pattern: motif3.motif

Significance: 7.92649e-09

/

Pattern: motif7.motif

Significance: 0.00556568

ES;D0;D;GEO

Pattern: metacluster_0/pattern_3

Significance: 3.48805e-06

/

Pattern: metacluster_0/pattern_9

Significance: 4.23193e-08

Pattern: motif6.motif

Significance: 2.10331e-07

/

Pattern: motif13.motif

Significance: 0.058126800000000006

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.044730400000000003

/

Pattern: metacluster_0/pattern_6

Significance: 0.0412411

/

Pattern: metacluster_0/pattern_7

Significance: 0.00578739

Pattern: motif2.motif

Significance: 0.029170299999999996

ES;129S1_SVImJ_CJ7;D;En

Pattern: metacluster_1/pattern_2

Significance: 4.16388e-11

Pattern: motif4.motif

Significance: 4.05011e-09

ES;E14;D;En

Pattern: metacluster_1/pattern_3

Significance: 3.55923e-09

/

Pattern: metacluster_1/pattern_5

Significance: 2.1956900000000004e-08

Pattern: motif5.motif

Significance: 1.99033e-06

ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_3

Significance: 2.87339e-09

/

Pattern: metacluster_1/pattern_19

Significance: 0.0226554

Pattern: motif9.motif

Significance: 1.1418399999999999e-05

ES;J1;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.00080541

/

Pattern: metacluster_1/pattern_5

Significance: 9.82193e-10

Pattern: motif6.motif

Significance: 4.4214799999999997e-07

ES;E14;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 2.08693e-09

/

Pattern: metacluster_0/pattern_10

Significance: 0.0200705

/

Pattern: metacluster_0/pattern_19

Significance: 0.038042599999999996

Pattern: motif5.motif

Significance: 3.43106e-08

ES;F1216;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 3.01034e-09

/

Pattern: metacluster_0/pattern_7

Significance: 0.000166635

Pattern: motif7.motif

Significance: 3.2758199999999997e-06

ES;129SV_Jae_C57BL6J;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 2.0863299999999998e-09

/

Pattern: metacluster_1/pattern_6

Significance: 3.08389e-05

Pattern: motif4.motif

Significance: 7.519939999999999e-08

ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 4.44553e-09

/

Pattern: metacluster_1/pattern_16

Significance: 0.0307546

Pattern: motif4.motif

Significance: 9.14606e-07

/

Pattern: motif10.motif

Significance: 0.0324203

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.0483945

/

Pattern: metacluster_0/pattern_5

Significance: 0.0118384

Pattern: motif13.motif

Significance: 0.017250099999999997

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.0467353

/

Pattern: metacluster_0/pattern_8

Significance: 0.028085200000000005

/

Pattern: metacluster_0/pattern_15

Significance: 0.000183255

Pattern: motif2.motif

Significance: 0.028676099999999996

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.0318071

/

Pattern: metacluster_1/pattern_3

Significance: 0.003251

/

Pattern: metacluster_1/pattern_8

Significance: 0.0323564

Pattern: motif2.motif

Significance: 0.0280495

Unique Cell types only TF-MoDISco finds Nanog: #41

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

Pattern: metacluster_0/pattern_3

Significance: 0.00667312

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

Pattern: metacluster_1/pattern_13

Significance: 0.0103644

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

Pattern: metacluster_0/pattern_3

Significance: 0.00816615

/

Pattern: metacluster_0/pattern_11

Significance: 0.0583928

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

Pattern: metacluster_1/pattern_2

Significance: 0.022825

/

Pattern: metacluster_1/pattern_11

Significance: 0.00095276

Absent
Erythroid;Ter119+;A;GEO

Pattern: metacluster_0/pattern_15

Significance: 0.014090700000000001

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

Pattern: metacluster_0/pattern_2

Significance: 0.011622799999999999

/

Pattern: metacluster_0/pattern_14

Significance: 0.00262103

/

Pattern: metacluster_0/pattern_16

Significance: 0.056606100000000006

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

Pattern: metacluster_0/pattern_1

Significance: 0.0196768

/

Pattern: metacluster_0/pattern_20

Significance: 0.00591563

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

Pattern: metacluster_1/pattern_2

Significance: 0.0189767

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

Pattern: metacluster_0/pattern_3

Significance: 0.0170329

/

Pattern: metacluster_0/pattern_25

Significance: 0.0440083

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

Pattern: metacluster_0/pattern_3

Significance: 0.0171306

/

Pattern: metacluster_0/pattern_20

Significance: 0.0420818

/

Pattern: metacluster_0/pattern_22

Significance: 0.0168906

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

Pattern: metacluster_0/pattern_3

Significance: 0.0192572

/

Pattern: metacluster_0/pattern_18

Significance: 0.0250038

/

Pattern: metacluster_0/pattern_20

Significance: 0.013871799999999998

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

Pattern: metacluster_0/pattern_3

Significance: 0.000105158

/

Pattern: metacluster_0/pattern_6

Significance: 0.051521300000000006

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

Pattern: metacluster_0/pattern_3

Significance: 0.0236717

/

Pattern: metacluster_0/pattern_6

Significance: 0.00448177

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

Pattern: metacluster_1/pattern_19

Significance: 0.00203094

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.0276435

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.05152090000000001

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.0355724

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.050252099999999994

Absent
eCortical_NRN;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.00236943

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0460708

/

Pattern: metacluster_1/pattern_17

Significance: 0.0151613

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.0476761

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.04643869999999999

Absent
npES;ZHBTC4;doxyc;treat;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.0110654

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

Pattern: metacluster_0/pattern_6

Significance: 5.8158699999999995e-08

/

Pattern: metacluster_0/pattern_10

Significance: 4.02677e-06

Absent
PNCRS;A;CL

Pattern: metacluster_0/pattern_15

Significance: 0.0167077

Absent
BRN;MDL_OBLNGT;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.029612700000000002

Absent
aB;CD180;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.05535369999999999

Absent
aB_LPS+IL4_24h;A;CL

Pattern: metacluster_0/pattern_14

Significance: 0.0576222

Absent
KDNY;8wks;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.0329246

Absent
RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0519856

/

Pattern: metacluster_0/pattern_5

Significance: 0.034937199999999995

/

Pattern: metacluster_0/pattern_19

Significance: 0.00039311099999999997

Absent
ILC3;A;GEO

Pattern: metacluster_1/pattern_20

Significance: 0.0355566

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

Pattern: metacluster_0/pattern_5

Significance: 0.010354700000000001

Absent
Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.0220601

/

Pattern: metacluster_1/pattern_11

Significance: 0.00814257

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.014713

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

Pattern: metacluster_0/pattern_2

Significance: 0.0239329

/

Pattern: metacluster_0/pattern_8

Significance: 0.00200725

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

Pattern: metacluster_0/pattern_4

Significance: 0.012437799999999999

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

Pattern: metacluster_0/pattern_2

Significance: 0.017294099999999996

/

Pattern: metacluster_0/pattern_6

Significance: 0.0481865

/

Pattern: metacluster_0/pattern_11

Significance: 0.00812851

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

Pattern: metacluster_0/pattern_3

Significance: 0.024524

/

Pattern: metacluster_0/pattern_8

Significance: 0.00256441

Absent
Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.033019

/

Pattern: metacluster_1/pattern_7

Significance: 0.0183767

Absent
WHL_BRN;8wks;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.048710500000000004

Absent
wES;Telenchephalon;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.035313

Absent
Unique Cell types only Homer finds Nanog: #9

Cell typeModiscoHomer
LRG_INTSTN;8wks;D;EnAbsent

Pattern: motif4.motif

Significance: 0.026178700000000003

aB;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.00260213

B1_B;A;CLAbsent

Pattern: motif14.motif

Significance: 0.0337467

GC_B;A;CLAbsent

Pattern: motif4.motif

Significance: 0.057531399999999996

aB_CD40+IL4;A;CLAbsent

Pattern: motif20.motif

Significance: 0.0313994

Muller;P12;D;EnAbsent

Pattern: motif4.motif

Significance: 0.0465911

wCH12;A;CLAbsent

Pattern: motif4.motif

Significance: 0.010025200000000001

CH12;med14;A;CLAbsent

Pattern: motif6.motif

Significance: 0.015379599999999998

wCH12_drug;A;CLAbsent

Pattern: motif10.motif

Significance: 0.026712299999999998