In [1]:
# Parameters
data_name = "Nkx6-3"
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 11:24:50,101 [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)
Nkx6-3: Motif: M00522_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Nkx6-3: #10

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

Pattern: metacluster_0/pattern_3

Significance: 0.000848428

/

Pattern: metacluster_0/pattern_5

Significance: 0.017711

Pattern: motif4.motif

Significance: 0.0440241

/

Pattern: motif8.motif

Significance: 0.0262147

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.0114459

/

Pattern: metacluster_0/pattern_3

Significance: 0.00137657

Pattern: motif3.motif

Significance: 0.0361749

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00578856

Pattern: motif9.motif

Significance: 0.0288063

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00755604

Pattern: motif2.motif

Significance: 0.05282130000000001

iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0359829

Pattern: motif3.motif

Significance: 0.040105

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.019495

Pattern: motif13.motif

Significance: 0.03468

wES;MSDRM;E11.5;D;En

Pattern: metacluster_0/pattern_5

Significance: 0.00356211

Pattern: motif2.motif

Significance: 0.0463649

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.016011400000000002

Pattern: motif4.motif

Significance: 0.013734999999999999

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0239296

/

Pattern: metacluster_0/pattern_8

Significance: 0.0382597

Pattern: motif3.motif

Significance: 0.0151553

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.00942521

Pattern: motif14.motif

Significance: 0.00687812

Unique Cell types only TF-MoDISco finds Nkx6-3: #18

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

Pattern: metacluster_0/pattern_25

Significance: 0.039114499999999996

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

Pattern: metacluster_0/pattern_11

Significance: 0.050883199999999996

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

Pattern: metacluster_1/pattern_4

Significance: 0.0248385

/

Pattern: metacluster_1/pattern_13

Significance: 0.00199207

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

Pattern: metacluster_0/pattern_21

Significance: 0.039510500000000004

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

Pattern: metacluster_0/pattern_7

Significance: 0.0322059

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

Pattern: metacluster_0/pattern_18

Significance: 0.0182261

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

Pattern: metacluster_0/pattern_5

Significance: 0.037814099999999996

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

Pattern: metacluster_0/pattern_6

Significance: 0.00042396

Absent
CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.017646900000000004

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

Pattern: metacluster_0/pattern_1

Significance: 0.006853199999999999

Absent
ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0510653

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

Pattern: metacluster_0/pattern_0

Significance: 0.00512101

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

Pattern: metacluster_0/pattern_2

Significance: 0.00349766

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.00671811

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

Pattern: metacluster_0/pattern_6

Significance: 0.00768383

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

Pattern: metacluster_0/pattern_16

Significance: 0.0591448

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

Pattern: metacluster_0/pattern_21

Significance: 0.05475940000000001

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

Pattern: metacluster_1/pattern_0

Significance: 0.00318857

Absent
Unique Cell types only Homer finds Nkx6-3: #3

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

Pattern: motif3.motif

Significance: 0.031042700000000003

KDNY;P0;D;EnAbsent

Pattern: motif4.motif

Significance: 0.0206842

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.028077800000000003