In [1]:
# Parameters
data_name = "Nkx1-1"
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 11:24:06,486 [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)
Nkx1-1: Motif: M00442_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Nkx1-1: #15

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

Pattern: metacluster_0/pattern_3

Significance: 0.000302751

Pattern: motif3.motif

Significance: 0.0514808

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00578856

Pattern: motif9.motif

Significance: 0.0069763

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.012408200000000001

Pattern: motif6.motif

Significance: 0.0101182

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00160436

Pattern: motif2.motif

Significance: 0.0037329999999999998

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.00133764

Pattern: motif3.motif

Significance: 0.00382739

iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.058614099999999995

Pattern: motif3.motif

Significance: 0.018255900000000002

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.011448200000000002

Pattern: motif13.motif

Significance: 0.011712700000000001

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.00297847

Pattern: motif4.motif

Significance: 0.00511187

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.00297972

Pattern: motif2.motif

Significance: 0.0019278

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.00349766

Pattern: motif2.motif

Significance: 0.00161497

Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.024624700000000003

Pattern: motif10.motif

Significance: 0.013779900000000001

BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0165122

Pattern: motif13.motif

Significance: 0.00988546

wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.00423732

Pattern: motif6.motif

Significance: 0.0132139

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.023116099999999997

Pattern: motif14.motif

Significance: 0.0145814

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.00268178

Pattern: motif2.motif

Significance: 0.00250325

Unique Cell types only TF-MoDISco finds Nkx1-1: #19

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

Pattern: metacluster_0/pattern_25

Significance: 0.00479643

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

Pattern: metacluster_0/pattern_3

Significance: 0.0018597000000000002

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

Pattern: metacluster_1/pattern_13

Significance: 0.0004393

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

Pattern: metacluster_0/pattern_20

Significance: 0.0127158

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

Pattern: metacluster_0/pattern_7

Significance: 0.0498551

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

Pattern: metacluster_0/pattern_18

Significance: 0.00346191

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

Pattern: metacluster_0/pattern_6

Significance: 7.07276e-05

Absent
ES;E14;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.0460255

Absent
ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.057272699999999996

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

Pattern: metacluster_0/pattern_8

Significance: 0.0036042

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0309618

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.043975099999999996

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0097512

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

Pattern: metacluster_0/pattern_5

Significance: 0.0126876

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.01275

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

Pattern: metacluster_1/pattern_21

Significance: 0.05393490000000001

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.05144259999999999

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

Pattern: metacluster_0/pattern_16

Significance: 0.00270223

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

Pattern: metacluster_0/pattern_14

Significance: 0.0175563

Absent
Unique Cell types only Homer finds Nkx1-1: #5

Cell typeModiscoHomer
wES.CRNL_NRL_CRST;E10.5;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0493859

NPC;F129;A;GEOAbsent

Pattern: motif7.motif

Significance: 0.0394772

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.0183421

CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.0112515

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

Pattern: motif16.motif

Significance: 0.0147891