In [1]:
# Parameters
data_name = "Hoxb4"
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 11:12:35,289 [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)
Hoxb4: Motif: M09576_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Hoxb4: #12

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

Pattern: metacluster_0/pattern_9

Significance: 8.87115e-06

/

Pattern: metacluster_0/pattern_22

Significance: 0.03938130000000001

/

Pattern: metacluster_0/pattern_25

Significance: 0.0467746

Pattern: motif4.motif

Significance: 0.00239477

wES;limb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.009295

/

Pattern: metacluster_0/pattern_5

Significance: 0.010829

Pattern: motif8.motif

Significance: 0.040598199999999994

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.0454323

/

Pattern: metacluster_0/pattern_3

Significance: 0.012988299999999998

Pattern: motif5.motif

Significance: 0.0228208

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

Pattern: metacluster_0/pattern_11

Significance: 6.76119e-05

/

Pattern: metacluster_0/pattern_18

Significance: 0.0206207

Pattern: motif6.motif

Significance: 0.000189349

npES;posterior_delA;E8.5;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.0283442

/

Pattern: metacluster_0/pattern_6

Significance: 0.029210000000000003

Pattern: motif5.motif

Significance: 0.0589347

npES;posterior_delC;E8.5;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00325154

/

Pattern: metacluster_0/pattern_7

Significance: 4.516040000000001e-06

Pattern: motif7.motif

Significance: 0.00695486

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.0223907

Pattern: motif3.motif

Significance: 0.057912

wES;MSDRM;E11.5;D;En

Pattern: metacluster_0/pattern_0

Significance: 0.00363048

/

Pattern: metacluster_0/pattern_5

Significance: 0.00401248

Pattern: motif2.motif

Significance: 0.00047822800000000003

ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.00162725

Pattern: motif15.motif

Significance: 0.000851895

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.041319

Pattern: motif4.motif

Significance: 0.0372921

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.031124799999999998

/

Pattern: metacluster_0/pattern_8

Significance: 0.0286375

Pattern: motif3.motif

Significance: 0.0505097

KDNY;P0;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0102889

Pattern: motif4.motif

Significance: 0.022849500000000002

Unique Cell types only TF-MoDISco finds Hoxb4: #34

Cell typeModiscoHomer
MPP;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.00526096

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

Pattern: metacluster_1/pattern_4

Significance: 0.0108537

/

Pattern: metacluster_1/pattern_13

Significance: 0.0158772

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

Pattern: metacluster_1/pattern_4

Significance: 4.688979999999999e-05

Absent
AML;D;En

Pattern: metacluster_1/pattern_18

Significance: 0.0116141

Absent
BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.052373300000000005

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

Pattern: metacluster_0/pattern_16

Significance: 0.0496159

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

Pattern: metacluster_0/pattern_21

Significance: 0.0534957

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

Pattern: metacluster_1/pattern_17

Significance: 8.40832e-05

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

Pattern: metacluster_0/pattern_6

Significance: 5.95864e-06

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

Pattern: metacluster_0/pattern_11

Significance: 0.030423000000000002

/

Pattern: metacluster_0/pattern_20

Significance: 0.0493667

Absent
wES;posterior;1;E9.5;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 1.3797e-08

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.035368300000000005

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0468541

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.050105800000000006

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0373008

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0359829

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.020646599999999998

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.020115099999999997

Absent
Adrenal;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.038656

Absent
LNG_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_20

Significance: 0.00633467

Absent
wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.0252043

Absent
NIH3T3_FBROBLST;D;En

Pattern: metacluster_1/pattern_20

Significance: 0.00939373

Absent
CLP;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.056897

Absent
KDNY;8wks;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.010993600000000001

Absent
CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.030799200000000002

Absent
Adipose;D;En

Pattern: metacluster_0/pattern_22

Significance: 0.00113925

Absent
RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.0231416

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

Pattern: metacluster_0/pattern_2

Significance: 0.0238252

Absent
Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.0530471

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.023746200000000002

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

Pattern: metacluster_0/pattern_6

Significance: 0.0406803

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

Pattern: metacluster_0/pattern_17

Significance: 0.028377299999999998

Absent
Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0175571

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

Pattern: metacluster_1/pattern_0

Significance: 0.04302519999999999

Absent
Unique Cell types only Homer finds Hoxb4: #2

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

Pattern: motif3.motif

Significance: 0.0421936

LRG_INTSTN;8wks;D;EnAbsent

Pattern: motif4.motif

Significance: 0.0527775