In [1]:
# Parameters
data_name = "Gata4"
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 11:09:56,172 [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)
Gata4: Motif: M00799_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Gata4: #20

Cell typeModiscoHomer
MegP;A;En

Pattern: metacluster_1/pattern_6

Significance: 0.00150206

Pattern: motif7.motif

Significance: 0.0286527

pCMP;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.00700197

Pattern: motif7.motif

Significance: 0.00991192

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

Pattern: metacluster_1/pattern_5

Significance: 0.035328500000000006

Pattern: motif3.motif

Significance: 0.0271779

LVR;P0;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.013012600000000001

Pattern: motif13.motif

Significance: 0.0134226

SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00155963

Pattern: motif14.motif

Significance: 0.029081700000000002

STMCH;P0;D;En

Pattern: metacluster_1/pattern_17

Significance: 0.000575361

Pattern: motif13.motif

Significance: 0.0403831

Heart;P0;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.000293123

Pattern: motif13.motif

Significance: 0.00213314

LNG_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.00705669

Pattern: motif14.motif

Significance: 0.051117199999999995

416B;HMTP_SPNSN;CD34+;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.0115071

Pattern: motif11.motif

Significance: 0.0130148

Erythroid;Ter119+;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.0135309

Pattern: motif8.motif

Significance: 0.00810682

AML;AE9a;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.00029132400000000003

Pattern: motif3.motif

Significance: 0.00748521

Mast;A;CL

Pattern: metacluster_0/pattern_7

Significance: 0.00149654

Pattern: motif6.motif

Significance: 0.00318612

BSPHL;A;CL

Pattern: metacluster_1/pattern_8

Significance: 0.00227266

Pattern: motif7.motif

Significance: 0.000160245

MEF.GATA-1-ER;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.015276699999999999

Pattern: motif4.motif

Significance: 0.0145007

MEL;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.00243947

Pattern: motif4.motif

Significance: 0.000685229

LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_12

Significance: 0.000484045

Pattern: motif6.motif

Significance: 0.0396484

416B_MP;CD34+;D;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.00206168

Pattern: motif12.motif

Significance: 0.015570600000000002

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

Pattern: metacluster_1/pattern_8

Significance: 0.0426546

Pattern: motif5.motif

Significance: 0.0575851

416B_MP;CD34+;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.00413656

Pattern: motif9.motif

Significance: 0.017726

MegEP;A;CL

Pattern: metacluster_1/pattern_2

Significance: 0.0041852

Pattern: motif2.motif

Significance: 0.00158927

Unique Cell types only TF-MoDISco finds Gata4: #41

Cell typeModiscoHomer
proB;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0165072

Absent
iNKT;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.0245887

Absent
B;B220_CD43;A;GEO

Pattern: metacluster_1/pattern_24

Significance: 0.00610571

Absent
ESNPHL_ex-vivo_BlbC;A;CL

Pattern: metacluster_0/pattern_18

Significance: 0.0525068

Absent
ESNPHL_SPLND_BlbCA;CL

Pattern: metacluster_0/pattern_15

Significance: 0.000315942

Absent
ENDRM_ESD;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.000458075

Absent
MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_14

Significance: 0.00770857

Absent
MN1;D;En

Pattern: metacluster_1/pattern_20

Significance: 0.0143684

Absent
aNonTfh;A;CL

Pattern: metacluster_1/pattern_20

Significance: 0.0375227

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

Pattern: metacluster_1/pattern_20

Significance: 0.0405631

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

Pattern: metacluster_0/pattern_26

Significance: 0.023078900000000003

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

Pattern: metacluster_1/pattern_16

Significance: 0.0468671

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

Pattern: metacluster_0/pattern_18

Significance: 0.00465938

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.0229665

Absent
Erythroblast;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.00021865

Absent
DP3a;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.0561625

Absent
SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.00194977

Absent
Heart;D;En

Pattern: metacluster_0/pattern_17

Significance: 0.00279696

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_17

Significance: 0.010679799999999998

Absent
EPP;A;En

Pattern: metacluster_1/pattern_9

Significance: 0.0267906

Absent
STMCH;A;CL

Pattern: metacluster_1/pattern_23

Significance: 0.048001300000000004

Absent
pErythroblast;A;En

Pattern: metacluster_1/pattern_9

Significance: 0.015124200000000003

Absent
LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.00113906

Absent
LNG;8wks;D;GEO

Pattern: metacluster_0/pattern_22

Significance: 0.00113613

Absent
SHRT_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.0034856

Absent
T_SPLND_blstCLTRD;CD4+;D;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.00852411

Absent
apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0119892

Absent
ILC2precrsr;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.00921178

Absent
NCR+ILC3;A;CL

Pattern: metacluster_1/pattern_18

Significance: 0.0117576

Absent
ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.009428299999999999

Absent
NCR+ILC3+IL23;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.00300684

Absent
ILC2;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.00279576

Absent
Th2_nippo;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.00514087

Absent
LNG;8wks;D;En

Pattern: metacluster_0/pattern_22

Significance: 0.00130806

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_18

Significance: 0.00122724

Absent
Adipose;D;En

Pattern: metacluster_0/pattern_24

Significance: 0.0482961

Absent
ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.00332339

Absent
ILC2;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0215737

Absent
ILC3;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.0116819

Absent
abTreg;CD4+_CD25+;8wks;D;En

Pattern: metacluster_1/pattern_16

Significance: 0.0453935

Absent
ILC2_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00242436

Absent
Unique Cell types only Homer finds Gata4: #1

Cell typeModiscoHomer
MEL_Znc_di-cl;24h;D;EnAbsent

Pattern: motif6.motif

Significance: 0.018385