In [1]:
# Parameters
data_name = "Lmx1b"
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 11:18:16,128 [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)
Lmx1b: Motif: M00482_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Lmx1b: #20

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

Pattern: metacluster_0/pattern_3

Significance: 0.009348100000000002

/

Pattern: metacluster_0/pattern_7

Significance: 0.046842699999999994

Pattern: motif4.motif

Significance: 0.00869969

wES;Fr_lmb;E11.5;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.026545799999999998

/

Pattern: metacluster_1/pattern_13

Significance: 0.00759505

Pattern: motif5.motif

Significance: 0.0267976

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00647558

Pattern: motif3.motif

Significance: 0.00428112

wES;FaceP;E11.5;D;En

Pattern: metacluster_1/pattern_4

Significance: 0.000980006

Pattern: motif3.motif

Significance: 0.00999557

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0265438

/

Pattern: metacluster_0/pattern_8

Significance: 0.00430531

Pattern: motif3.motif

Significance: 0.0105771

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00671427

Pattern: motif9.motif

Significance: 0.0118633

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00547071

Pattern: motif6.motif

Significance: 0.04927619999999999

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0058561

Pattern: motif2.motif

Significance: 0.0182745

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.00429423

Pattern: motif3.motif

Significance: 0.0301872

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00329282

Pattern: motif13.motif

Significance: 0.016236700000000003

MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.011336200000000001

Pattern: motif6.motif

Significance: 0.0344568

MN1;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.00867578

Pattern: motif9.motif

Significance: 0.0531128

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.00754865

Pattern: motif2.motif

Significance: 0.027529599999999998

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.00638572

Pattern: motif4.motif

Significance: 0.010807899999999999

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.00762756

Pattern: motif2.motif

Significance: 0.0171302

BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.033488300000000006

Pattern: motif13.motif

Significance: 0.028822800000000003

Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.023234900000000003

Pattern: motif10.motif

Significance: 0.0523829

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.00829087

Pattern: motif14.motif

Significance: 0.0058491

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

Pattern: metacluster_0/pattern_21

Significance: 0.00313145

Pattern: motif16.motif

Significance: 0.030825799999999997

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.00803521

Pattern: motif2.motif

Significance: 0.0213107

Unique Cell types only TF-MoDISco finds Lmx1b: #22

Cell typeModiscoHomer
wES;limb;E14.5;D;En

Pattern: metacluster_1/pattern_1

Significance: 0.042455400000000004

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

Pattern: metacluster_0/pattern_7

Significance: 0.0309658

/

Pattern: metacluster_0/pattern_8

Significance: 0.0397165

Absent
NIH3T3;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0285427

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

Pattern: metacluster_0/pattern_16

Significance: 0.00295037

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

Pattern: metacluster_0/pattern_14

Significance: 0.00374589

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

Pattern: metacluster_0/pattern_21

Significance: 0.0253435

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

Pattern: metacluster_0/pattern_22

Significance: 0.0383532

/

Pattern: metacluster_0/pattern_25

Significance: 0.00652198

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

Pattern: metacluster_0/pattern_20

Significance: 0.0164226

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

Pattern: metacluster_0/pattern_21

Significance: 0.00398197

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

Pattern: metacluster_0/pattern_18

Significance: 0.00978909

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

Pattern: metacluster_0/pattern_6

Significance: 0.059338800000000004

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

Pattern: metacluster_0/pattern_6

Significance: 0.00802884

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0440585

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.043975099999999996

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0496346

Absent
NIH3T3_FBROBLST;D;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.05548240000000001

Absent
NIH3T3_FBROBLST;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0302366

Absent
ES;E14;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.0502854

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

Pattern: metacluster_0/pattern_5

Significance: 0.030110599999999998

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.00550927

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

Pattern: metacluster_0/pattern_6

Significance: 0.00469654

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

Pattern: metacluster_0/pattern_6

Significance: 0.0167706

Absent
Unique Cell types only Homer finds Lmx1b: #4

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

Pattern: motif3.motif

Significance: 0.0500587

CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.0368874

BRN;OLFTRY_BLB;A;CLAbsent

Pattern: motif7.motif

Significance: 0.0513784

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.0253083