In [1]:
# Parameters
data_name = "Hoxb3"
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 11:12:33,952 [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)
Hoxb3: Motif: M00504_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Hoxb3: #17

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

Pattern: metacluster_0/pattern_3

Significance: 0.000629349

Pattern: motif8.motif

Significance: 0.012934399999999999

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00025361599999999997

Pattern: motif3.motif

Significance: 0.046661900000000006

/

Pattern: motif5.motif

Significance: 0.051281799999999995

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_8

Significance: 0.0102499

Pattern: motif3.motif

Significance: 0.028829900000000002

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00640053

Pattern: motif9.motif

Significance: 0.0105488

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.012408200000000001

Pattern: motif6.motif

Significance: 0.017838200000000002

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00260476

Pattern: motif2.motif

Significance: 0.00600115

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.00232032

Pattern: motif3.motif

Significance: 0.00528238

iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.038720300000000006

Pattern: motif3.motif

Significance: 0.020620199999999998

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00932764

Pattern: motif13.motif

Significance: 0.0176275

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.00449257

Pattern: motif4.motif

Significance: 0.013734999999999999

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.00342094

Pattern: motif2.motif

Significance: 0.00555467

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.0038116

Pattern: motif2.motif

Significance: 0.00482473

Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.0492556

Pattern: motif10.motif

Significance: 0.0197431

BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0385709

Pattern: motif13.motif

Significance: 0.0162274

wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.005985

Pattern: motif6.motif

Significance: 0.0182488

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.011554799999999999

Pattern: motif14.motif

Significance: 0.012265

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.00290756

Pattern: motif2.motif

Significance: 0.00613663

Unique Cell types only TF-MoDISco finds Hoxb3: #13

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

Pattern: metacluster_0/pattern_25

Significance: 0.0109874

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

Pattern: metacluster_0/pattern_20

Significance: 0.0372974

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

Pattern: metacluster_1/pattern_13

Significance: 0.000552744

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

Pattern: metacluster_0/pattern_18

Significance: 0.004273600000000001

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

Pattern: metacluster_0/pattern_6

Significance: 8.05836e-06

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.043767

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.04984280000000001

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0293974

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

Pattern: metacluster_0/pattern_5

Significance: 5.2466800000000004e-05

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.0456287

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.0120876

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

Pattern: metacluster_0/pattern_16

Significance: 0.0134075

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

Pattern: metacluster_0/pattern_14

Significance: 0.013260299999999997

Absent
Unique Cell types only Homer finds Hoxb3: #7

Cell typeModiscoHomer
LRG_INTSTN;8wks;D;EnAbsent

Pattern: motif4.motif

Significance: 0.019206

wES.CRNL_NRL_CRST;E10.5;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0597203

SML_INTSTN;A;CLAbsent

Pattern: motif3.motif

Significance: 0.038211400000000006

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.020380900000000004

CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.0149394

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

Pattern: motif16.motif

Significance: 0.01719

KDNY;P0;D;EnAbsent

Pattern: motif4.motif

Significance: 0.014067700000000002