In [1]:
# Parameters
data_name = "Shox2"
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 11:34:19,770 [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)
Shox2: Motif: M00439_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Shox2: #21

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

Pattern: metacluster_0/pattern_3

Significance: 0.000840178

Pattern: motif4.motif

Significance: 0.00824027

wES;Fr_lmb;E11.5;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.000193229

Pattern: motif5.motif

Significance: 0.030193900000000003

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00022305

Pattern: motif3.motif

Significance: 0.00284905

wES;FaceP;E11.5;D;En

Pattern: metacluster_1/pattern_4

Significance: 0.0389334

Pattern: motif3.motif

Significance: 0.0108561

MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0449756

Pattern: motif6.motif

Significance: 0.0248518

BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.028162700000000002

Pattern: motif13.motif

Significance: 0.0117191

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

Pattern: metacluster_0/pattern_21

Significance: 0.000948933

Pattern: motif16.motif

Significance: 0.0147891

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00186073

Pattern: motif9.motif

Significance: 0.00983685

NPC;F129;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.05757759999999999

Pattern: motif7.motif

Significance: 0.0394772

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00371728

Pattern: motif13.motif

Significance: 0.0170651

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.000844413

Pattern: motif2.motif

Significance: 0.00307186

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00472502

Pattern: motif6.motif

Significance: 0.011233799999999999

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00101796

Pattern: motif2.motif

Significance: 0.0037329999999999998

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.00036333

Pattern: motif3.motif

Significance: 0.00382739

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0021853000000000003

Pattern: motif4.motif

Significance: 0.00785303

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.00120958

Pattern: motif2.motif

Significance: 0.00295692

Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.027206099999999997

Pattern: motif10.motif

Significance: 0.0164003

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_8

Significance: 0.00187854

Pattern: motif3.motif

Significance: 0.0151553

wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.000712058

Pattern: motif6.motif

Significance: 0.0132139

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0093618

Pattern: motif14.motif

Significance: 0.00433512

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.000807529

Pattern: motif2.motif

Significance: 0.00313992

Unique Cell types only TF-MoDISco finds Shox2: #18

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

Pattern: metacluster_0/pattern_22

Significance: 0.0240777

/

Pattern: metacluster_0/pattern_25

Significance: 0.00210474

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

Pattern: metacluster_0/pattern_20

Significance: 0.0113319

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

Pattern: metacluster_0/pattern_21

Significance: 0.00398197

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: 0.000925113

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

Pattern: metacluster_0/pattern_6

Significance: 0.000270864

Absent
ES;E14;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.038042599999999996

Absent
ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0399621

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0309618

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0359961

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0475355

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

Pattern: metacluster_0/pattern_5

Significance: 0.00462222

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.000991827

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

Pattern: metacluster_1/pattern_21

Significance: 0.0355852

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.0351718

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

Pattern: metacluster_0/pattern_16

Significance: 0.00223894

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

Pattern: metacluster_0/pattern_14

Significance: 0.00132355

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

Pattern: metacluster_0/pattern_21

Significance: 0.0361664

Absent
Unique Cell types only Homer finds Shox2: #6

Cell typeModiscoHomer
BRN;OLFTRY_BLB;A;CLAbsent

Pattern: motif7.motif

Significance: 0.0513784

wES.CRNL_NRL_CRST;E10.5;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0215532

iVIP_NRN;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0228253

MN1;D;EnAbsent

Pattern: motif9.motif

Significance: 0.0387305

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.0224897

CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.012446899999999999