In [1]:
# Parameters
data_name = "En1"
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 11:04:53,492 [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)
En1: Motif: M00519_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds En1: #24

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

Pattern: metacluster_0/pattern_3

Significance: 0.00143912

Pattern: motif4.motif

Significance: 0.000404799

wES;Fr_lmb;E11.5;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.000552744

Pattern: motif5.motif

Significance: 0.00337542

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.000509725

Pattern: motif3.motif

Significance: 0.00016051799999999998

wES;FaceP;E14.5;D;En

Pattern: metacluster_0/pattern_7

Significance: 0.029881

Pattern: motif14.motif

Significance: 0.047305

wES;FaceP;E11.5;D;En

Pattern: metacluster_1/pattern_4

Significance: 0.0350533

Pattern: motif3.motif

Significance: 0.00530888

MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0187071

Pattern: motif6.motif

Significance: 0.0252888

MN1;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.0503992

Pattern: motif9.motif

Significance: 0.04213

BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.017357400000000002

Pattern: motif13.motif

Significance: 0.014377700000000002

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

Pattern: metacluster_0/pattern_21

Significance: 0.00424279

Pattern: motif16.motif

Significance: 0.0150715

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00374443

Pattern: motif9.motif

Significance: 0.00616326

wES.CRNL_NRL_CRST;E10.5;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.0486906

Pattern: motif3.motif

Significance: 0.00280293

iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.043206699999999994

Pattern: motif3.motif

Significance: 0.014499799999999998

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00487644

Pattern: motif13.motif

Significance: 0.00897489

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.00251419

Pattern: motif2.motif

Significance: 0.00333641

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00446988

Pattern: motif6.motif

Significance: 0.0101182

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0023606

Pattern: motif2.motif

Significance: 0.00426592

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.00190193

Pattern: motif3.motif

Significance: 0.00382739

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0036969999999999998

Pattern: motif4.motif

Significance: 0.00532168

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.00277091

Pattern: motif2.motif

Significance: 0.00341827

Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.023234900000000003

Pattern: motif10.motif

Significance: 0.0164003

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_8

Significance: 0.00430531

Pattern: motif3.motif

Significance: 0.0169771

wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.00263525

Pattern: motif6.motif

Significance: 0.0130058

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.018993799999999998

Pattern: motif14.motif

Significance: 0.00569932

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.00212061

Pattern: motif2.motif

Significance: 0.003173

Unique Cell types only TF-MoDISco finds En1: #17

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

Pattern: metacluster_0/pattern_22

Significance: 0.0254202

/

Pattern: metacluster_0/pattern_25

Significance: 0.00221933

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

Pattern: metacluster_0/pattern_20

Significance: 0.0326536

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

Pattern: metacluster_0/pattern_21

Significance: 0.010927

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

Pattern: metacluster_0/pattern_18

Significance: 0.00121352

Absent
ES;E14;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.0390011

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

Pattern: metacluster_0/pattern_6

Significance: 0.000462395

Absent
ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.057272699999999996

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.046761800000000006

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0557111

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.026466900000000005

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

Pattern: metacluster_0/pattern_5

Significance: 0.0432975

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.00474438

Absent
npES;ZHBTC4;Brg1fl_fl;untreat;A;GEO

Pattern: metacluster_1/pattern_21

Significance: 0.0444967

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.037242199999999996

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

Pattern: metacluster_0/pattern_16

Significance: 0.00590006

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

Pattern: metacluster_0/pattern_14

Significance: 0.00335432

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

Pattern: metacluster_0/pattern_21

Significance: 0.0409162

Absent
Unique Cell types only Homer finds En1: #4

Cell typeModiscoHomer
NPC;F129;A;GEOAbsent

Pattern: motif7.motif

Significance: 0.0445373

CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.013058199999999999

BRN;OLFTRY_BLB;A;CLAbsent

Pattern: motif7.motif

Significance: 0.0158128

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.0121985