In [1]:
# Parameters
data_name = "Gmeb2"
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 11:10:45,715 [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)
Gmeb2: Motif: M00824_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Gmeb2: #14

Cell typeModiscoHomer
LVR;8wks;D;En

Pattern: metacluster_0/pattern_11

Significance: 0.0434879

Pattern: motif3.motif

Significance: 0.0197238

NTRPHL;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.0338513

/

Pattern: metacluster_0/pattern_12

Significance: 0.0226898

Pattern: motif5.motif

Significance: 0.0123113

LNG;8wks;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.0192247

Pattern: motif2.motif

Significance: 0.0157221

LNG;P0;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0310841

Pattern: motif4.motif

Significance: 0.0142012

LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0370017

Pattern: motif3.motif

Significance: 0.0144733

DC_BMD;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.0385922

Pattern: motif11.motif

Significance: 0.050739599999999996

LNG;8wks;D;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.0229082

Pattern: motif3.motif

Significance: 0.0241829

CRBLM;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.0557163

Pattern: motif10.motif

Significance: 0.0200942

MCRPHG_BMD.UnStmltd;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.0574461

Pattern: motif11.motif

Significance: 0.018889700000000002

BSPHL;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.0440386

Pattern: motif6.motif

Significance: 0.0299846

DC_LPS;2h;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0557865

Pattern: motif6.motif

Significance: 0.00286735

NTRPHL;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.042917500000000004

Pattern: motif3.motif

Significance: 0.031209300000000002

Muscle;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.05410269999999999

Pattern: motif9.motif

Significance: 0.0248543

Mammary_BptfKO;A;GEO

Pattern: metacluster_0/pattern_11

Significance: 0.0283493

Pattern: motif10.motif

Significance: 0.059072400000000004

/

Pattern: motif13.motif

Significance: 0.0426508

Unique Cell types only TF-MoDISco finds Gmeb2: #68

Cell typeModiscoHomer
naiveCD8;A;CL

Pattern: metacluster_0/pattern_6

Significance: 0.0129345

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.0514245

Absent
Th17;CD4+;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.0403318

Absent
NK_SPLND;A;CL

Pattern: metacluster_0/pattern_7

Significance: 0.036062000000000004

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

Pattern: metacluster_0/pattern_6

Significance: 0.0389394

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

Pattern: metacluster_0/pattern_9

Significance: 0.0392664

Absent
LRG_INTSTN;8wks;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.0229866

Absent
matureB;A;CL

Pattern: metacluster_0/pattern_15

Significance: 0.027485700000000002

Absent
aB;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0429834

Absent
STMCH;P0;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.010344200000000001

Absent
B_SPLND;A;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.0301666

Absent
plasmaB;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.0481891

Absent
3134_mammaryADNCRCNM;D;En

Pattern: metacluster_0/pattern_9

Significance: 0.029870499999999998

/

Pattern: metacluster_0/pattern_12

Significance: 0.054653099999999996

Absent
MEL;D;En

Pattern: metacluster_1/pattern_16

Significance: 0.012852299999999999

Absent
Mast;A;CL

Pattern: metacluster_0/pattern_6

Significance: 0.0217942

Absent
MEL_Znc_di-cl;24h;D;En

Pattern: metacluster_1/pattern_20

Significance: 0.0149784

Absent
MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_16

Significance: 0.00796271

Absent
BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0270947

Absent
aNonTfh_mut;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.049525599999999996

Absent
Tfr;CD4+CD44+CXCR5+PD1+CD25+;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.053036099999999996

Absent
Tfr_mut;CD4+CD44+CXCR5+PD1+CD25+;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.0416295

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

Pattern: metacluster_1/pattern_7

Significance: 0.026270299999999996

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

Pattern: metacluster_0/pattern_16

Significance: 0.054624599999999995

Absent
SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.05920159999999999

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_14

Significance: 0.0200581

Absent
NPC;F129;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.052209000000000005

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0314719

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.048179900000000005

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0399327

Absent
ES;MEF;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0296909

Absent
ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.017365099999999998

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_8

Significance: 0.019371400000000004

Absent
Melanotrope;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.00748328

Absent
Heart;D;En

Pattern: metacluster_0/pattern_12

Significance: 0.042269

Absent
testis;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.0410351

Absent
NRV;Eye-OPTC;A;CL

Pattern: metacluster_0/pattern_7

Significance: 0.0520394

Absent
BRN;OLFTRY_BLB;A;CL

Pattern: metacluster_0/pattern_9

Significance: 0.026158799999999996

Absent
BRN;PTMN;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.033556300000000004

Absent
BRN;SNSR_MTR_CRTX;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.0573193

Absent
BRN;CRBLM;A;CL

Pattern: metacluster_0/pattern_6

Significance: 0.00928499

Absent
restingB;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.0447726

Absent
LNG_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0105738

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0576668

Absent
gamma_delta_TCR_MCR;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.055774199999999996

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.0232438

Absent
NK;IL2+IL12+;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.0559649

Absent
naiveT_SPLND;CD4+;D;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.017042599999999998

Absent
NCR+ILC3;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.015386700000000001

Absent
ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.029544499999999998

Absent
ILC1;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.0547183

Absent
WHL_BRN;8wks;D;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.0247603

Absent
ILC2;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0338886

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.00620382

Absent
KDNY;8wks;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.0398546

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

Pattern: metacluster_1/pattern_9

Significance: 0.00962002

/

Pattern: metacluster_1/pattern_20

Significance: 0.0500555

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_10

Significance: 0.0118771

Absent
Mammary_GLND;A;GEO

Pattern: metacluster_1/pattern_11

Significance: 0.0502344

Absent
Heart;P0;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0291714

Absent
ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.037723400000000004

Absent
ILC1;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.057815599999999995

Absent
ILC2;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.0237437

Absent
ILC3;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.051410199999999996

Absent
ILC1_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.029677099999999994

Absent
ILC3_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0455657

Absent
T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0479419

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.023922299999999997

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

Pattern: metacluster_0/pattern_15

Significance: 0.0587004

Absent
WHL_BRN;8wks;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.0245668

Absent
Unique Cell types only Homer finds Gmeb2: #20

Cell typeModiscoHomer
MegP;A;EnAbsent

Pattern: motif4.motif

Significance: 0.00635609

DC_LPS;4h;A;EnAbsent

Pattern: motif6.motif

Significance: 0.019661900000000003

pGMP;A;EnAbsent

Pattern: motif3.motif

Significance: 0.0181623

DC;A;EnAbsent

Pattern: motif5.motif

Significance: 0.00604287

SKLTL_Muscle;8wks;D;EnAbsent

Pattern: motif5.motif

Significance: 0.015788999999999997

NIH3T3_FBROBLST;D;GEOAbsent

Pattern: motif5.motif

Significance: 0.0546268

Adipose;D;EnAbsent

Pattern: motif1.motif

Significance: 0.0163807

AML;D;EnAbsent

Pattern: motif3.motif

Significance: 0.0225612

NIH3T3_FBROBLST;D;EnAbsent

Pattern: motif4.motif

Significance: 0.0214715

416B_MP;CD34+;D;EnAbsent

Pattern: motif6.motif

Significance: 0.00772696

DC_LPS;6h;A;GEOAbsent

Pattern: motif5.motif

Significance: 0.00307113

NIH3T3;D;EnAbsent

Pattern: motif5.motif

Significance: 0.00841401

placenta;A;CLAbsent

Pattern: motif9.motif

Significance: 0.028111900000000002

416B_MP;CD34+;D;GEOAbsent

Pattern: motif6.motif

Significance: 0.00951435

3T3-L1;D;EnAbsent

Pattern: motif9.motif

Significance: 0.00680347

Muller;P12;D;EnAbsent

Pattern: motif9.motif

Significance: 0.0298319

/

Pattern: motif15.motif

Significance: 0.0238203

Teff;TCR_SV40-I_CD8+;D7;A;GEOAbsent

Pattern: motif13.motif

Significance: 0.045677499999999996

Adrenal;A;CLAbsent

Pattern: motif7.motif

Significance: 0.029389799999999997

FBRBLST;8wks;D;EnAbsent

Pattern: motif11.motif

Significance: 0.0271411

pMeg;A;EnAbsent

Pattern: motif3.motif

Significance: 0.00992602