In [1]:
# Parameters
data_name = "Hes1"
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 11:10:58,521 [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)
Hes1: Motif: M01726_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Hes1: #7

Cell typeModiscoHomer
NRV;Eye-OPTC;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.0548077

Pattern: motif7.motif

Significance: 0.0459436

DC;A;En

Pattern: metacluster_1/pattern_13

Significance: 0.056009199999999995

Pattern: motif13.motif

Significance: 0.0480696

preB;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.039186900000000004

Pattern: motif15.motif

Significance: 0.042603699999999994

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.036430699999999996

Pattern: motif8.motif

Significance: 0.0396577

DC_LPS;6h;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.044505800000000005

Pattern: motif12.motif

Significance: 0.0469093

BSPHL;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0478901

Pattern: motif9.motif

Significance: 0.0338139

ILC2;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.0523586

Pattern: motif9.motif

Significance: 0.030840899999999997

Unique Cell types only TF-MoDISco finds Hes1: #58

Cell typeModiscoHomer
naiveCD8;A;CL

Pattern: metacluster_0/pattern_10

Significance: 0.0510084

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_8

Significance: 0.0398704

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

Pattern: metacluster_0/pattern_18

Significance: 0.0459026

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

Pattern: metacluster_1/pattern_11

Significance: 0.0465291

Absent
proB;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.048633800000000005

/

Pattern: metacluster_1/pattern_12

Significance: 0.0599783

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

Pattern: metacluster_1/pattern_8

Significance: 0.046561

Absent
iNKT;A;GEO

Pattern: metacluster_1/pattern_11

Significance: 0.042922300000000004

Absent
aB;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0537126

Absent
B1_B;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0514347

Absent
B_SPLND;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.0487789

Absent
STMCH;P0;D;En

Pattern: metacluster_1/pattern_15

Significance: 0.0491575

Absent
416B;HMTP_SPNSN;CD34+;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0396854

Absent
aB_LSP+a_d_dextran;A;CL

Pattern: metacluster_0/pattern_7

Significance: 0.056180600000000004

Absent
ESNPHL_ex-vivo_BlbC;A;CL

Pattern: metacluster_0/pattern_10

Significance: 0.0578393

Absent
ROD_PHT_RCPTR_RTN;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.0418629

Absent
Tfh;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.0430006

Absent
CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.059165199999999994

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

Pattern: metacluster_0/pattern_13

Significance: 0.0430821

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

Pattern: metacluster_0/pattern_18

Significance: 0.057831799999999996

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

Pattern: metacluster_1/pattern_11

Significance: 0.051032

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

Pattern: metacluster_1/pattern_9

Significance: 0.032936599999999996

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

Pattern: metacluster_1/pattern_10

Significance: 0.025034599999999997

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

Pattern: metacluster_1/pattern_7

Significance: 0.054877199999999994

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

Pattern: metacluster_1/pattern_8

Significance: 0.055998900000000004

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

Pattern: metacluster_0/pattern_18

Significance: 0.055552199999999996

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

Pattern: metacluster_1/pattern_9

Significance: 0.0566489

Absent
DP3b;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0336632

Absent
ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.056376499999999996

/

Pattern: metacluster_1/pattern_14

Significance: 0.0413442

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_15

Significance: 0.05290689999999999

Absent
LNG;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.040897199999999995

Absent
Adipose;A;CL

Pattern: metacluster_1/pattern_8

Significance: 0.0434

/

Pattern: metacluster_1/pattern_10

Significance: 0.056924699999999995

Absent
STMCH;A;CL

Pattern: metacluster_1/pattern_8

Significance: 0.034602600000000004

Absent
eye-NRL_RTN;A;CL

Pattern: metacluster_0/pattern_8

Significance: 0.04177

Absent
DC_LPS;4h;A;En

Pattern: metacluster_1/pattern_13

Significance: 0.0359149

Absent
LNG_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0355336

Absent
naiveT_SPLND;CD4+;D;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0561139

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.0561446

Absent
ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.0377026

Absent
NCR+ILC3+IL23;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.0578525

Absent
CH12_QNTPLE;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.051279599999999995

/

Pattern: metacluster_1/pattern_15

Significance: 0.042958699999999996

Absent
wCH12;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0405415

Absent
CH12;med14;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0570861

Absent
wCH12_drug;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.031689499999999995

Absent
CLP;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0352298

/

Pattern: metacluster_1/pattern_14

Significance: 0.0420793

Absent
NIH3T3_FBROBLST;D;En

Pattern: metacluster_1/pattern_16

Significance: 0.0556141

Absent
NK_LVRD;CD19-CD3e-NKp46+DX+Trail-;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0592875

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.032026

/

Pattern: metacluster_1/pattern_15

Significance: 0.0481325

Absent
KDNY;8wks;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.0499492

Absent
LNG;8wks;D;En

Pattern: metacluster_0/pattern_11

Significance: 0.0512319

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_8

Significance: 0.043083800000000005

Absent
CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_13

Significance: 0.0511874

Absent
Adipose;D;En

Pattern: metacluster_0/pattern_13

Significance: 0.0328654

Absent
ILC1;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.059895800000000006

Absent
ILC3;A;GEO

Pattern: metacluster_1/pattern_11

Significance: 0.0592266

Absent
ILC3_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.0421356

Absent
Muller;P12;D;En

Pattern: metacluster_1/pattern_17

Significance: 0.049313199999999995

Absent
Teff;TCR_SV40-I_CD8+;D7;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.058459500000000005

Absent
WHL_BRN;8wks;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.0507349

Absent
Unique Cell types only Homer finds Hes1: #16

Cell typeModiscoHomer
Th17;CD4+;A;CLAbsent

Pattern: motif14.motif

Significance: 0.0315866

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

Pattern: motif13.motif

Significance: 0.0428002

/

Pattern: motif21.motif

Significance: 0.045154599999999996

CD4+CD8intTCR+CD69+CD24+;MHC2defM;A;CLAbsent

Pattern: motif20.motif

Significance: 0.0342579

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

Pattern: motif11.motif

Significance: 0.031827499999999995

CD4+CD8+TCR+CD69+CD24+;MHC2defM;A;CAbsent

Pattern: motif21.motif

Significance: 0.0302362

BRN;OLFTRY_BLB;A;CLAbsent

Pattern: motif16.motif

Significance: 0.0308978

ES;F1216;A;GEOAbsent

Pattern: motif19.motif

Significance: 0.0458671

RTN;A;GEOAbsent

Pattern: motif13.motif

Significance: 0.0438049

wES;RTN;E11.5;D;EnAbsent

Pattern: motif23.motif

Significance: 0.030626599999999997

A20;B-lymphoma;D;EnAbsent

Pattern: motif13.motif

Significance: 0.028321

EP;c-kit+CD71+Ter119+;D;EnAbsent

Pattern: motif2.motif

Significance: 0.05717959999999999

ES;MEF;A;CLAbsent

Pattern: motif7.motif

Significance: 0.0347176

Hnd_BRN;P0;D;EnAbsent

Pattern: motif16.motif

Significance: 0.0418183

Heart;D;EnAbsent

Pattern: motif14.motif

Significance: 0.047441000000000004

Mammary;A;CLAbsent

Pattern: motif10.motif

Significance: 0.028098

testis;A;CLAbsent

Pattern: motif8.motif

Significance: 0.036037599999999996