In [1]:
# Parameters
data_name = "Alx3"
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 10:57:28,791 [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)
Alx3: Motif: M00402_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Alx3: #23

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

Pattern: metacluster_0/pattern_3

Significance: 0.00364463

/

Pattern: metacluster_0/pattern_7

Significance: 0.046842699999999994

Pattern: motif4.motif

Significance: 0.00095013

wES;Fr_lmb;E11.5;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.0289259

/

Pattern: metacluster_1/pattern_13

Significance: 0.00228657

Pattern: motif5.motif

Significance: 0.00145139

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00210271

Pattern: motif3.motif

Significance: 0.000559008

wES;FaceP;E14.5;D;En

Pattern: metacluster_0/pattern_7

Significance: 0.029881

/

Pattern: metacluster_0/pattern_8

Significance: 0.051148400000000004

Pattern: motif14.motif

Significance: 0.047305

wES;FaceP;E11.5;D;En

Pattern: metacluster_1/pattern_4

Significance: 0.000948708

Pattern: motif3.motif

Significance: 0.0009772119999999999

MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0007263460000000001

Pattern: motif6.motif

Significance: 0.026692900000000002

MN1;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.00283623

Pattern: motif9.motif

Significance: 0.045767199999999994

BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0165122

Pattern: motif13.motif

Significance: 0.0133436

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

Pattern: metacluster_0/pattern_21

Significance: 0.00117921

Pattern: motif16.motif

Significance: 0.0150715

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00345034

Pattern: motif9.motif

Significance: 0.00616326

iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.038720300000000006

Pattern: motif3.motif

Significance: 0.018314700000000003

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00188899

Pattern: motif13.motif

Significance: 0.00847391

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.00251419

Pattern: motif2.motif

Significance: 0.00403467

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00215063

Pattern: motif6.motif

Significance: 0.012740600000000001

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00221127

Pattern: motif2.motif

Significance: 0.00435275

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.00137047

Pattern: motif3.motif

Significance: 0.00559594

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.00279638

Pattern: motif4.motif

Significance: 0.00508051

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.00282468

Pattern: motif2.motif

Significance: 0.00379398

Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.015813499999999998

Pattern: motif10.motif

Significance: 0.0165168

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.031124799999999998

/

Pattern: metacluster_0/pattern_8

Significance: 0.0020622

Pattern: motif3.motif

Significance: 0.0105771

wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.00170221

Pattern: motif6.motif

Significance: 0.016259299999999997

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.00829087

Pattern: motif14.motif

Significance: 0.00433512

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.00220884

Pattern: motif2.motif

Significance: 0.00330322

Unique Cell types only TF-MoDISco finds Alx3: #21

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

Pattern: metacluster_1/pattern_1

Significance: 0.05664119999999999

Absent
NIH3T3;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.039218699999999995

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

Pattern: metacluster_0/pattern_16

Significance: 0.00244616

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

Pattern: metacluster_0/pattern_14

Significance: 0.00107841

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

Pattern: metacluster_0/pattern_21

Significance: 0.00380429

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

Pattern: metacluster_0/pattern_22

Significance: 0.026648200000000004

/

Pattern: metacluster_0/pattern_25

Significance: 0.00336325

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

Pattern: metacluster_0/pattern_20

Significance: 0.00988751

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: 0.00354486

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

Pattern: metacluster_0/pattern_6

Significance: 0.050246

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

Pattern: metacluster_0/pattern_6

Significance: 0.00354664

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0333159

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0428084

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0293974

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

Pattern: metacluster_1/pattern_21

Significance: 0.0444967

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.0456924

Absent
NIH3T3_FBROBLST;D;En

Pattern: metacluster_1/pattern_8

Significance: 0.0404391

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: 0.057272699999999996

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

Pattern: metacluster_0/pattern_5

Significance: 0.0177452

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.00219343

Absent
Unique Cell types only Homer finds Alx3: #4

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

Pattern: motif3.motif

Significance: 0.020721700000000003

CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.0130994

BRN;OLFTRY_BLB;A;CLAbsent

Pattern: motif7.motif

Significance: 0.0230635

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.0124966