In [1]:
# Parameters
data_name = "Lhx4"
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 11:17:35,698 [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)
Lhx4: Motif: M03257_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Lhx4: #24

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

Pattern: metacluster_0/pattern_3

Significance: 0.0025696

/

Pattern: metacluster_0/pattern_7

Significance: 0.048001999999999996

Pattern: motif4.motif

Significance: 0.0164263

wES;Fr_lmb;E11.5;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.032841699999999995

/

Pattern: metacluster_1/pattern_13

Significance: 0.00183283

Pattern: motif5.motif

Significance: 0.0430018

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00117208

Pattern: motif3.motif

Significance: 0.00607199

wES;FaceP;E14.5;D;En

Pattern: metacluster_0/pattern_7

Significance: 0.029881

Pattern: motif14.motif

Significance: 0.047305

wES;FaceP;E11.5;D;En

Pattern: metacluster_1/pattern_4

Significance: 0.0338644

Pattern: motif3.motif

Significance: 0.035033999999999996

MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0441381

Pattern: motif6.motif

Significance: 0.021476

MN1;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.0461904

Pattern: motif9.motif

Significance: 0.0365302

BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0477485

Pattern: motif13.motif

Significance: 0.0229543

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

Pattern: metacluster_0/pattern_21

Significance: 0.00151311

Pattern: motif16.motif

Significance: 0.021843099999999997

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00356748

Pattern: motif9.motif

Significance: 0.0162511

iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.04473169999999999

Pattern: motif3.motif

Significance: 0.0209787

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0025144000000000004

Pattern: motif13.motif

Significance: 0.0193333

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.00251419

Pattern: motif2.motif

Significance: 0.00633573

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00437049

Pattern: motif6.motif

Significance: 0.0241442

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0023606

Pattern: motif2.motif

Significance: 0.00555467

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.00156386

Pattern: motif3.motif

Significance: 0.00754278

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.00279638

Pattern: motif4.motif

Significance: 0.010803299999999998

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.00282468

Pattern: motif2.motif

Significance: 0.00482473

Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.023234900000000003

Pattern: motif10.motif

Significance: 0.029008799999999998

Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.00246168

Pattern: motif15.motif

Significance: 0.055896900000000006

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.035653699999999997

/

Pattern: metacluster_0/pattern_8

Significance: 0.00292952

Pattern: motif3.motif

Significance: 0.0121884

wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.00201365

Pattern: motif6.motif

Significance: 0.0226359

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.00942521

Pattern: motif14.motif

Significance: 0.0058491

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.00214829

Pattern: motif2.motif

Significance: 0.00530036

Unique Cell types only TF-MoDISco finds Lhx4: #19

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

Pattern: metacluster_1/pattern_1

Significance: 0.05664119999999999

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

Pattern: metacluster_0/pattern_22

Significance: 0.0369166

/

Pattern: metacluster_0/pattern_25

Significance: 0.00285935

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

Pattern: metacluster_0/pattern_20

Significance: 0.0135821

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

Pattern: metacluster_0/pattern_21

Significance: 0.00643883

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

Pattern: metacluster_0/pattern_18

Significance: 0.00392307

Absent
ES;E14;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.038042599999999996

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

Pattern: metacluster_0/pattern_6

Significance: 0.00196931

Absent
ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0584442

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0359206

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.046795300000000005

Absent
NIH3T3_FBROBLST;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0477471

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0378478

Absent
NIH3T3;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.054939999999999996

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

Pattern: metacluster_0/pattern_5

Significance: 0.0338226

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

Pattern: metacluster_1/pattern_21

Significance: 0.059681200000000004

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.04163719999999999

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

Pattern: metacluster_0/pattern_16

Significance: 0.00263329

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

Pattern: metacluster_0/pattern_14

Significance: 0.00220586

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

Pattern: metacluster_0/pattern_21

Significance: 0.0107453

Absent
Unique Cell types only Homer finds Lhx4: #4

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

Pattern: motif3.motif

Significance: 0.0104428

CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.0216934

BRN;OLFTRY_BLB;A;CLAbsent

Pattern: motif7.motif

Significance: 0.0230635

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.024740599999999998