In [1]:
# Parameters
data_name = "Nkx3-2"
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 11:24:47,448 [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)
Nkx3-2: Motif: M00506_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Nkx3-2: #2

Cell typeModiscoHomer
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.0249787

Pattern: motif9.motif

Significance: 0.0546188

LNG;8wks;D;En

Pattern: metacluster_0/pattern_9

Significance: 0.0247377

Pattern: motif4.motif

Significance: 0.00604413

Unique Cell types only TF-MoDISco finds Nkx3-2: #15

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

Pattern: metacluster_0/pattern_3

Significance: 0.0105187

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

Pattern: metacluster_1/pattern_13

Significance: 0.00849649

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

Pattern: metacluster_0/pattern_3

Significance: 0.012267100000000001

Absent
LNG;8wks;D;GEO

Pattern: metacluster_0/pattern_9

Significance: 0.0324142

Absent
wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.021049900000000003

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

Pattern: metacluster_0/pattern_25

Significance: 0.05794780000000001

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

Pattern: metacluster_0/pattern_18

Significance: 0.050288099999999995

Absent
LNG;P0;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.014627000000000001

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

Pattern: metacluster_0/pattern_6

Significance: 0.00854734

Absent
RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0328207

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

Pattern: metacluster_0/pattern_1

Significance: 0.03576409999999999

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

Pattern: metacluster_0/pattern_5

Significance: 0.0577434

Absent
wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.0188515

Absent
wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.0385351

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

Pattern: metacluster_1/pattern_0

Significance: 0.0157086

Absent
Unique Cell types only Homer finds Nkx3-2: #1

Cell typeModiscoHomer
Muller;P12;D;EnAbsent

Pattern: motif4.motif

Significance: 0.0436068