In [1]:
# Parameters
data_name = "Isl2"
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 11:14:33,676 [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)
Isl2: Motif: M00458_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Isl2: #10

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

Pattern: metacluster_0/pattern_3

Significance: 0.00787891

Pattern: motif4.motif

Significance: 0.058388499999999996

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00675969

Pattern: motif3.motif

Significance: 0.046661900000000006

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0112352

Pattern: motif2.motif

Significance: 0.0440287

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.0126645

Pattern: motif3.motif

Significance: 0.0413483

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0157247

Pattern: motif4.motif

Significance: 0.0410967

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.0167867

Pattern: motif2.motif

Significance: 0.038518000000000004

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.025462000000000002

Pattern: motif2.motif

Significance: 0.0459115

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_8

Significance: 0.019498500000000002

Pattern: motif3.motif

Significance: 0.0350394

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0249424

Pattern: motif14.motif

Significance: 0.0365793

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.0133363

Pattern: motif2.motif

Significance: 0.0362048

Unique Cell types only TF-MoDISco finds Isl2: #15

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

Pattern: metacluster_0/pattern_22

Significance: 0.027558

/

Pattern: metacluster_0/pattern_25

Significance: 0.00699712

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

Pattern: metacluster_1/pattern_13

Significance: 0.00647568

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

Pattern: metacluster_0/pattern_21

Significance: 0.043489

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

Pattern: metacluster_0/pattern_18

Significance: 0.00567046

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

Pattern: metacluster_0/pattern_6

Significance: 0.00256461

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.0267236

Absent
CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.028116900000000004

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0174955

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

Pattern: metacluster_0/pattern_5

Significance: 0.00473361

Absent
Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.0506334

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.025076599999999998

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

Pattern: metacluster_0/pattern_6

Significance: 0.0182263

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

Pattern: metacluster_0/pattern_16

Significance: 0.0239723

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

Pattern: metacluster_0/pattern_21

Significance: 0.0188481

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

Pattern: metacluster_0/pattern_14

Significance: 0.0191993

Absent
Unique Cell types only Homer finds Isl2: #1

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

Pattern: motif3.motif

Significance: 0.0597203