In [1]:
# Parameters
data_name = "Lhx3"
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 11:17:33,530 [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)
Lhx3: Motif: M02687_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Lhx3: #25

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

Pattern: metacluster_0/pattern_3

Significance: 0.05502819999999999

/

Pattern: metacluster_0/pattern_7

Significance: 0.042116100000000004

Pattern: motif4.motif

Significance: 0.039374099999999995

wES;Fr_lmb;E11.5;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.0112669

/

Pattern: metacluster_1/pattern_13

Significance: 0.00827405

Pattern: motif5.motif

Significance: 0.0579026

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.0555462

/

Pattern: metacluster_0/pattern_3

Significance: 0.0475664

Pattern: motif3.motif

Significance: 0.0182547

wES;FaceP;E14.5;D;En

Pattern: metacluster_0/pattern_7

Significance: 0.0513773

/

Pattern: metacluster_0/pattern_8

Significance: 0.0397165

Pattern: motif14.motif

Significance: 0.047305

wES;FaceP;E11.5;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.0319337

/

Pattern: metacluster_1/pattern_4

Significance: 0.0452635

Pattern: motif3.motif

Significance: 0.0367328

MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0449756

Pattern: motif6.motif

Significance: 0.00849994

MN1;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.0367031

Pattern: motif9.motif

Significance: 0.011422799999999999

BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0544727

Pattern: motif13.motif

Significance: 0.0234943

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

Pattern: metacluster_0/pattern_21

Significance: 0.0566221

Pattern: motif16.motif

Significance: 0.0245725

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.0210282

Pattern: motif9.motif

Significance: 0.0475074

wES.CRNL_NRL_CRST;E10.5;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.0541784

/

Pattern: metacluster_0/pattern_7

Significance: 0.0525716

Pattern: motif3.motif

Significance: 0.017390400000000004

NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0557111

Pattern: motif16.motif

Significance: 0.0425761

iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0460722

Pattern: motif3.motif

Significance: 0.0127618

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0113386

Pattern: motif13.motif

Significance: 0.0594922

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.031758999999999996

Pattern: motif2.motif

Significance: 0.00690757

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.0170889

Pattern: motif6.motif

Significance: 0.017838200000000002

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0144495

Pattern: motif2.motif

Significance: 0.0408781

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.0426085

/

Pattern: metacluster_0/pattern_15

Significance: 0.0401215

Pattern: motif3.motif

Significance: 0.057912

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0131458

Pattern: motif4.motif

Significance: 0.0255558

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.025462000000000002

Pattern: motif2.motif

Significance: 0.0526658

Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.029966900000000005

Pattern: motif10.motif

Significance: 0.028877299999999998

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0239296

/

Pattern: metacluster_0/pattern_8

Significance: 0.0388208

Pattern: motif3.motif

Significance: 0.0232483

wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.019911

Pattern: motif6.motif

Significance: 0.020945

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.023116099999999997

Pattern: motif14.motif

Significance: 0.0344978

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.0331221

Pattern: motif2.motif

Significance: 0.0539194

/

Pattern: motif24.motif

Significance: 0.037101999999999996

Unique Cell types only TF-MoDISco finds Lhx3: #24

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

Pattern: metacluster_1/pattern_1

Significance: 0.0287106

Absent
NIH3T3;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0159248

Absent
3T3-L1;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.0457584

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

Pattern: metacluster_0/pattern_16

Significance: 0.014996500000000001

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

Pattern: metacluster_0/pattern_14

Significance: 0.00365815

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

Pattern: metacluster_0/pattern_21

Significance: 0.0361664

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

Pattern: metacluster_0/pattern_22

Significance: 0.0254202

/

Pattern: metacluster_0/pattern_25

Significance: 0.0354423

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

Pattern: metacluster_0/pattern_20

Significance: 0.0302592

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

Pattern: metacluster_0/pattern_21

Significance: 0.0079967

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

Pattern: metacluster_0/pattern_18

Significance: 0.051995900000000005

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

Pattern: metacluster_0/pattern_6

Significance: 0.059210900000000004

Absent
NPC;F129;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0236002

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0381176

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0097512

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

Pattern: metacluster_1/pattern_21

Significance: 0.0554638

Absent
NIH3T3_FBROBLST;D;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0332898

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.0586566

Absent
NIH3T3_FBROBLST;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0191804

Absent
FBRBLST;8wks;D;En

Pattern: metacluster_1/pattern_15

Significance: 0.0554293

Absent
3T3-L1;FBRBLST;D;En

Pattern: metacluster_1/pattern_14

Significance: 0.059871600000000004

Absent
ES;E14;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.0526962

Absent
ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0584442

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

Pattern: metacluster_0/pattern_5

Significance: 0.0278582

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.0288925

Absent
Unique Cell types only Homer finds Lhx3: #2

Cell typeModiscoHomer
CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.020893099999999998

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.0345305