In [1]:
# Parameters
data_name = "Gata6"
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 11:10:08,140 [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)
Gata6: Motif: M09120_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Gata6: #20

Cell typeModiscoHomer
MegP;A;En

Pattern: metacluster_1/pattern_6

Significance: 7.73903e-06

Pattern: motif7.motif

Significance: 0.0199889

pCMP;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.00013272

Pattern: motif7.motif

Significance: 0.00708975

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

Pattern: metacluster_1/pattern_5

Significance: 0.00587196

Pattern: motif3.motif

Significance: 0.00529818

LVR;P0;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.00128341

Pattern: motif13.motif

Significance: 0.00254251

SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00228272

Pattern: motif14.motif

Significance: 0.0376179

STMCH;P0;D;En

Pattern: metacluster_1/pattern_17

Significance: 0.012481200000000001

Pattern: motif13.motif

Significance: 0.0322918

Heart;P0;D;En

Pattern: metacluster_1/pattern_13

Significance: 5.2607799999999995e-05

Pattern: motif13.motif

Significance: 0.00016189

LNG_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_10

Significance: 7.44459e-05

Pattern: motif14.motif

Significance: 0.051117199999999995

416B;HMTP_SPNSN;CD34+;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.000792672

Pattern: motif11.motif

Significance: 0.0115936

Erythroid;Ter119+;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.0007483539999999999

Pattern: motif8.motif

Significance: 0.00299641

AML;AE9a;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.00016635400000000001

Pattern: motif3.motif

Significance: 0.0008489410000000001

Mast;A;CL

Pattern: metacluster_0/pattern_7

Significance: 0.0187262

Pattern: motif6.motif

Significance: 0.0110765

BSPHL;A;CL

Pattern: metacluster_1/pattern_8

Significance: 0.020090900000000002

Pattern: motif7.motif

Significance: 0.0112544

MEF.GATA-1-ER;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.00371075

Pattern: motif4.motif

Significance: 0.0122237

MEL;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.000135483

Pattern: motif4.motif

Significance: 5.764490000000001e-06

LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_12

Significance: 0.0129525

Pattern: motif6.motif

Significance: 0.053671500000000004

416B_MP;CD34+;D;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.00031992

Pattern: motif12.motif

Significance: 0.0154953

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

Pattern: metacluster_1/pattern_8

Significance: 0.00770678

Pattern: motif5.motif

Significance: 0.0311723

416B_MP;CD34+;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.00039156900000000003

Pattern: motif9.motif

Significance: 0.0392633

MegEP;A;CL

Pattern: metacluster_1/pattern_2

Significance: 0.00107627

Pattern: motif2.motif

Significance: 0.0132392

Unique Cell types only TF-MoDISco finds Gata6: #37

Cell typeModiscoHomer
proB;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.00317446

Absent
iNKT;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.0245887

Absent
B;B220_CD43;A;GEO

Pattern: metacluster_1/pattern_24

Significance: 0.00124367

Absent
ESNPHL_ex-vivo_BlbC;A;CL

Pattern: metacluster_0/pattern_18

Significance: 0.00451534

Absent
ESNPHL_SPLND_BlbCA;CL

Pattern: metacluster_0/pattern_15

Significance: 0.000313919

Absent
ENDRM_ESD;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.000122809

Absent
MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_14

Significance: 0.030789999999999998

Absent
MN1;D;En

Pattern: metacluster_1/pattern_20

Significance: 0.0466327

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

Pattern: metacluster_1/pattern_20

Significance: 0.00547934

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

Pattern: metacluster_0/pattern_26

Significance: 0.00419408

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

Pattern: metacluster_0/pattern_18

Significance: 0.00046370300000000004

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.015016499999999999

Absent
Erythroblast;A;CL

Pattern: metacluster_1/pattern_9

Significance: 4.84705e-05

Absent
SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.020581

Absent
Heart;D;En

Pattern: metacluster_0/pattern_17

Significance: 0.000303087

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_17

Significance: 0.00151479

Absent
EPP;A;En

Pattern: metacluster_1/pattern_9

Significance: 0.0023190999999999997

Absent
STMCH;A;CL

Pattern: metacluster_1/pattern_23

Significance: 0.048001300000000004

Absent
pErythroblast;A;En

Pattern: metacluster_1/pattern_9

Significance: 0.00159174

Absent
LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.00127324

Absent
LNG;8wks;D;GEO

Pattern: metacluster_0/pattern_22

Significance: 0.000791307

Absent
SHRT_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.000242158

Absent
T_SPLND_blstCLTRD;CD4+;D;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0391332

Absent
apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0305278

Absent
ILC2precrsr;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.032845

Absent
NCR+ILC3;A;CL

Pattern: metacluster_1/pattern_18

Significance: 0.03982

Absent
ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.034417800000000005

Absent
NCR+ILC3+IL23;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.00300684

Absent
ILC2;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.0199282

Absent
Th2_nippo;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.0246488

Absent
LNG;8wks;D;En

Pattern: metacluster_0/pattern_22

Significance: 0.00118547

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_18

Significance: 0.000175542

Absent
ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0148085

Absent
ILC2;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0438394

Absent
ILC3;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.0403792

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

Pattern: metacluster_1/pattern_16

Significance: 0.047913300000000006

Absent
ILC2_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00242436

Absent
Unique Cell types only Homer finds Gata6: #1

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

Pattern: motif6.motif

Significance: 0.0138071