In [1]:
# Parameters
data_name = "Sox2"
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 11:35:34,277 [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)
Sox2: Motif: M08041_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Sox2: #36

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

Pattern: metacluster_1/pattern_2

Significance: 0.0234541

/

Pattern: metacluster_1/pattern_11

Significance: 0.00388594

Pattern: motif10.motif

Significance: 0.0226489

ENDRM_ESD;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.00270511

/

Pattern: metacluster_1/pattern_5

Significance: 0.000249023

/

Pattern: metacluster_1/pattern_11

Significance: 0.0528503

Pattern: motif9.motif

Significance: 0.00011707

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

Pattern: metacluster_0/pattern_2

Significance: 0.0171112

/

Pattern: metacluster_0/pattern_14

Significance: 0.00940805

Pattern: motif3.motif

Significance: 2.00527e-05

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

Pattern: metacluster_0/pattern_1

Significance: 0.0226707

/

Pattern: metacluster_0/pattern_20

Significance: 0.0156089

Pattern: motif2.motif

Significance: 9.606939999999999e-06

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

Pattern: metacluster_0/pattern_1

Significance: 0.0215643

/

Pattern: metacluster_0/pattern_17

Significance: 0.024230200000000004

Pattern: motif3.motif

Significance: 0.00051925

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

Pattern: metacluster_1/pattern_2

Significance: 0.023253700000000002

Pattern: motif8.motif

Significance: 0.000534016

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

Pattern: metacluster_0/pattern_3

Significance: 0.0169918

/

Pattern: metacluster_0/pattern_17

Significance: 0.004487

Pattern: motif3.motif

Significance: 0.00016900400000000002

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

Pattern: metacluster_0/pattern_3

Significance: 0.0224196

Pattern: motif3.motif

Significance: 0.000868434

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

Pattern: metacluster_0/pattern_3

Significance: 0.0197893

/

Pattern: metacluster_0/pattern_22

Significance: 0.0411681

Pattern: motif4.motif

Significance: 0.000147302

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

Pattern: metacluster_1/pattern_4

Significance: 0.0157681

/

Pattern: metacluster_1/pattern_19

Significance: 0.00210477

Pattern: motif6.motif

Significance: 0.00017623400000000002

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

Pattern: metacluster_0/pattern_3

Significance: 0.0195718

/

Pattern: metacluster_0/pattern_14

Significance: 0.00553782

Pattern: motif3.motif

Significance: 0.0439794

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

Pattern: metacluster_0/pattern_3

Significance: 0.028275099999999997

Pattern: motif8.motif

Significance: 0.00103349

npES;posterior_delC;E8.5;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.0314126

/

Pattern: metacluster_0/pattern_8

Significance: 0.0515727

Pattern: motif4.motif

Significance: 0.0008270160000000001

NPC;F129;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.000857468

/

Pattern: metacluster_1/pattern_16

Significance: 0.031278700000000006

/

Pattern: metacluster_1/pattern_20

Significance: 0.0436557

Pattern: motif14.motif

Significance: 0.0130589

NPC;Ch13;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.0422903

/

Pattern: metacluster_1/pattern_13

Significance: 0.015180299999999999

Pattern: motif4.motif

Significance: 0.030806599999999996

NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.018194400000000003

Pattern: motif7.motif

Significance: 0.017694

ES;E14;A;CL

Pattern: metacluster_1/pattern_2

Significance: 4.71061e-06

/

Pattern: metacluster_1/pattern_3

Significance: 0.00716875

Pattern: motif3.motif

Significance: 5.469740000000001e-06

/

Pattern: motif7.motif

Significance: 0.0007727869999999999

ES;ZhBTc4;untreated;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.00361921

/

Pattern: metacluster_1/pattern_5

Significance: 1.78017e-06

Pattern: motif6.motif

Significance: 2.36504e-05

npES;ZHBTC4;doxyc;treat;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.0110654

Pattern: motif16.motif

Significance: 0.041261400000000004

npES;ZHBTC4;Brg1fl_fl;untreat;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 2.1859e-06

/

Pattern: metacluster_1/pattern_11

Significance: 0.014894399999999999

/

Pattern: metacluster_1/pattern_21

Significance: 0.0346939

Pattern: motif3.motif

Significance: 1.1041700000000001e-05

ES;JM8.N4;Mitosis;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.000120864

/

Pattern: metacluster_0/pattern_7

Significance: 0.011164

Pattern: motif18.motif

Significance: 4.74289e-06

ES;ZhBTc4;1;D;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0107973

/

Pattern: metacluster_1/pattern_18

Significance: 0.00471481

Pattern: motif20.motif

Significance: 0.0414811

ES;ZhBTc4;2;D;GEO

Pattern: metacluster_1/pattern_2

Significance: 1.2827200000000001e-06

/

Pattern: metacluster_1/pattern_5

Significance: 0.00724777

Pattern: motif3.motif

Significance: 1.40381e-07

/

Pattern: motif7.motif

Significance: 0.0183668

ES;D0;D;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.000162212

/

Pattern: metacluster_0/pattern_9

Significance: 0.00195153

Pattern: motif6.motif

Significance: 1.29711e-06

/

Pattern: motif13.motif

Significance: 0.058126800000000006

ES;129S1_SVImJ_CJ7;D;En

Pattern: metacluster_1/pattern_2

Significance: 9.25364e-07

/

Pattern: metacluster_1/pattern_8

Significance: 0.0432065

Pattern: motif4.motif

Significance: 7.87615e-08

ES;E14;D;En

Pattern: metacluster_1/pattern_3

Significance: 5.23418e-06

/

Pattern: metacluster_1/pattern_5

Significance: 0.0316719

/

Pattern: metacluster_1/pattern_18

Significance: 0.0589591

Pattern: motif5.motif

Significance: 5.102850000000001e-06

ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_3

Significance: 3.52923e-06

/

Pattern: metacluster_1/pattern_8

Significance: 0.054895900000000004

/

Pattern: metacluster_1/pattern_12

Significance: 0.0430166

/

Pattern: metacluster_1/pattern_19

Significance: 0.0226554

Pattern: motif9.motif

Significance: 1.5776e-05

ES;J1;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0174405

/

Pattern: metacluster_1/pattern_5

Significance: 5.6974e-06

/

Pattern: metacluster_1/pattern_10

Significance: 0.0545265

Pattern: motif6.motif

Significance: 2.0149900000000003e-06

ES;E14;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 3.71786e-06

/

Pattern: metacluster_0/pattern_10

Significance: 0.0200705

/

Pattern: metacluster_0/pattern_19

Significance: 0.038042599999999996

Pattern: motif5.motif

Significance: 2.28299e-06

ES;F1216;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 2.8354400000000002e-06

/

Pattern: metacluster_0/pattern_7

Significance: 0.00903534

/

Pattern: metacluster_0/pattern_12

Significance: 0.033305400000000006

Pattern: motif7.motif

Significance: 9.77417e-06

ES;129SV_Jae_C57BL6J;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 3.2126799999999996e-06

/

Pattern: metacluster_1/pattern_6

Significance: 0.00387239

/

Pattern: metacluster_1/pattern_14

Significance: 0.038678

Pattern: motif4.motif

Significance: 5.56194e-07

ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 3.7221499999999996e-06

/

Pattern: metacluster_1/pattern_13

Significance: 0.0247111

/

Pattern: metacluster_1/pattern_16

Significance: 0.032394900000000004

Pattern: motif4.motif

Significance: 3.73906e-06

/

Pattern: motif10.motif

Significance: 0.0352176

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_5

Significance: 0.024859

Pattern: motif13.motif

Significance: 0.0545135

Muller;P12;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.00022557599999999998

Pattern: motif8.motif

Significance: 0.0185599

wES;Hnd_BRN;E11.5;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.026256900000000003

/

Pattern: metacluster_0/pattern_8

Significance: 0.00801857

Pattern: motif7.motif

Significance: 0.00963551

wES;Md_BRN;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0403995

/

Pattern: metacluster_0/pattern_8

Significance: 0.0118891

Pattern: motif6.motif

Significance: 0.00350816

Unique Cell types only TF-MoDISco finds Sox2: #77

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

Pattern: metacluster_1/pattern_18

Significance: 0.00732965

Absent
T_MLD;TCR_SV40-I_CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0561173

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

Pattern: metacluster_0/pattern_12

Significance: 0.00273375

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

Pattern: metacluster_1/pattern_15

Significance: 0.00308911

Absent
NK_SPLND;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.05250219999999999

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

Pattern: metacluster_0/pattern_11

Significance: 0.00239602

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

Pattern: metacluster_0/pattern_18

Significance: 0.00157764

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

Pattern: metacluster_1/pattern_14

Significance: 0.0571399

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

Pattern: metacluster_1/pattern_6

Significance: 0.00346663

Absent
STMCH;P0;D;En

Pattern: metacluster_1/pattern_18

Significance: 0.0344866

Absent
B1_B;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.0552174

Absent
prePLSM_B;A;GEO

Pattern: metacluster_1/pattern_11

Significance: 0.0532375

Absent
SKLTL_Muscle;8wks;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.059509000000000006

Absent
3134_mammaryADNCRCNM;D;En

Pattern: metacluster_0/pattern_12

Significance: 0.054653099999999996

Absent
aB_LPS+IL4;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0448765

Absent
Erythroid;Ter119+;A;GEO

Pattern: metacluster_0/pattern_15

Significance: 0.0415177

Absent
aB_CD40+IL4;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0524281

Absent
Mast;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.05917769999999999

Absent
MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_17

Significance: 0.05902090000000001

Absent
aNonTfh_mut;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0321861

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

Pattern: metacluster_1/pattern_10

Significance: 0.0437105

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

Pattern: metacluster_0/pattern_3

Significance: 0.00758625

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

Pattern: metacluster_1/pattern_19

Significance: 0.00515387

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

Pattern: metacluster_1/pattern_14

Significance: 0.042604500000000003

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

Pattern: metacluster_1/pattern_11

Significance: 0.05023830000000001

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_23

Significance: 0.020575299999999998

Absent
MCRPHG;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.0495025

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

Pattern: metacluster_0/pattern_10

Significance: 0.0360675

/

Pattern: metacluster_0/pattern_15

Significance: 0.00519488

/

Pattern: metacluster_0/pattern_16

Significance: 0.0442512

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.0007031510000000001

Absent
DP3a;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.053897400000000005

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.00732885

/

Pattern: metacluster_1/pattern_18

Significance: 0.0334526

Absent
eCortical_NRN;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0186348

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.0575729

Absent
ES;MEF;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.0313697

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0469954

Absent
Mammary;A;CL

Pattern: metacluster_0/pattern_10

Significance: 6.35245e-05

/

Pattern: metacluster_0/pattern_11

Significance: 0.059489999999999994

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

Pattern: metacluster_0/pattern_6

Significance: 3.86537e-05

/

Pattern: metacluster_0/pattern_10

Significance: 0.00178724

Absent
Mammary_BptfKO;A;GEO

Pattern: metacluster_0/pattern_9

Significance: 0.000395534

/

Pattern: metacluster_0/pattern_17

Significance: 0.054249900000000004

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.058337400000000005

Absent
SPNL_CHRD;A;CL

Pattern: metacluster_1/pattern_6

Significance: 7.89077e-05

Absent
PNCRS;A;CL

Pattern: metacluster_0/pattern_15

Significance: 0.0573595

Absent
eye-NRL_RTN;A;CL

Pattern: metacluster_0/pattern_12

Significance: 0.040487199999999994

Absent
NRV;Eye-OPTC;A;CL

Pattern: metacluster_0/pattern_2

Significance: 1.69913e-05

Absent
BRN;OLFTRY_BLB;A;CL

Pattern: metacluster_0/pattern_17

Significance: 0.0533019

Absent
BRN;FRNTL_CRTX;A;CL

Pattern: metacluster_1/pattern_19

Significance: 0.0408574

Absent
BRN;PTMN;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.000322571

Absent
BRN;MDL_OBLNGT;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0007888410000000001

Absent
BRN;SNSR_MTR_CRTX;A;CL

Pattern: metacluster_1/pattern_17

Significance: 0.00043694400000000004

Absent
BRN;CRBLM;A;CL

Pattern: metacluster_0/pattern_12

Significance: 0.045507

Absent
aB;CD180;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.059377099999999995

Absent
LNG_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.040232199999999996

Absent
3134_mammaryADNCRCNM;D;GE

Pattern: metacluster_1/pattern_25

Significance: 0.0318192

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_13

Significance: 0.0597121

Absent
ILC2precrsr;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0554679

Absent
ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_17

Significance: 0.0323262

Absent
WHL_BRN;8wks;D;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.00032690400000000004

Absent
NCR+ILC3+IL23;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.053191300000000004

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

Pattern: metacluster_0/pattern_6

Significance: 0.00142796

/

Pattern: metacluster_0/pattern_7

Significance: 0.028594900000000003

Absent
FBRBLST;8wks;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.000536021

Absent
KDNY;8wks;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.0329246

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

Pattern: metacluster_1/pattern_11

Significance: 0.0589842

Absent
Mammary_GLND;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.00155503

Absent
CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_15

Significance: 0.0187312

/

Pattern: metacluster_0/pattern_17

Significance: 0.0353798

Absent
Adipose;D;En

Pattern: metacluster_0/pattern_19

Significance: 0.000614319

Absent
RTN;D1;D;En

Pattern: metacluster_0/pattern_5

Significance: 0.056594000000000005

/

Pattern: metacluster_0/pattern_19

Significance: 0.00232826

Absent
ILC3;A;GEO

Pattern: metacluster_1/pattern_20

Significance: 0.05390219999999999

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

Pattern: metacluster_0/pattern_3

Significance: 7.42861e-05

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

Pattern: metacluster_0/pattern_8

Significance: 0.042438699999999996

/

Pattern: metacluster_0/pattern_15

Significance: 0.00123293

Absent
Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.0397341

/

Pattern: metacluster_1/pattern_11

Significance: 0.0548283

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.0267673

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

Pattern: metacluster_0/pattern_4

Significance: 0.0255255

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

Pattern: metacluster_0/pattern_2

Significance: 0.0374239

/

Pattern: metacluster_0/pattern_11

Significance: 0.05565

Absent
cntrl_memT;TCR_SV40-I_CD8+;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0584861

Absent
Md_BRN;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.0370744

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

Pattern: metacluster_1/pattern_3

Significance: 0.027162000000000002

/

Pattern: metacluster_1/pattern_8

Significance: 0.05859349999999999

Absent
WHL_BRN;8wks;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0471223

/

Pattern: metacluster_1/pattern_15

Significance: 0.000151036

Absent
wES;Telenchephalon;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.035276800000000004

/

Pattern: metacluster_1/pattern_17

Significance: 0.000114168

Absent
Unique Cell types only Homer finds Sox2: #1

Cell typeModiscoHomer
aB;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.0580425