In [1]:
# Parameters
data_name = "Hoxb8"
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 11:12:59,422 [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)
Hoxb8: Motif: M00517_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Hoxb8: #11

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

Pattern: metacluster_0/pattern_9

Significance: 0.0169662

Pattern: motif4.motif

Significance: 0.0222777

wES;limb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.053279599999999996

/

Pattern: metacluster_0/pattern_5

Significance: 0.033143900000000004

Pattern: motif8.motif

Significance: 0.00275134

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.017168

/

Pattern: metacluster_0/pattern_3

Significance: 0.0167381

Pattern: motif5.motif

Significance: 0.0573095

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

Pattern: metacluster_0/pattern_11

Significance: 0.00288234

/

Pattern: metacluster_0/pattern_18

Significance: 0.053447400000000006

Pattern: motif6.motif

Significance: 0.009234200000000001

npES;posterior_delA;E8.5;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.00415732

Pattern: motif5.motif

Significance: 0.053333000000000005

npES;posterior_delC;E8.5;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00423568

/

Pattern: metacluster_0/pattern_7

Significance: 0.00169761

Pattern: motif7.motif

Significance: 0.053362099999999996

LRG_INTSTN;8wks;D;En

Pattern: metacluster_1/pattern_4

Significance: 0.025259200000000002

Pattern: motif4.motif

Significance: 0.00453226

wES;MSDRM;E11.5;D;En

Pattern: metacluster_0/pattern_0

Significance: 0.013307

/

Pattern: metacluster_0/pattern_5

Significance: 0.016905700000000003

Pattern: motif2.motif

Significance: 0.0463649

SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_4

Significance: 0.0297652

Pattern: motif3.motif

Significance: 0.020669200000000002

ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0331308

Pattern: motif15.motif

Significance: 0.0436849

KDNY;P0;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0273362

Pattern: motif4.motif

Significance: 0.03925580000000001

Unique Cell types only TF-MoDISco finds Hoxb8: #19

Cell typeModiscoHomer
npES;5th_Rhmbmr_delA;E8.5;A;GEO

Pattern: metacluster_0/pattern_11

Significance: 0.00532942

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

Pattern: metacluster_1/pattern_13

Significance: 0.017274599999999998

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

Pattern: metacluster_1/pattern_9

Significance: 0.00158588

Absent
KDNY;8wks;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.0329135

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

Pattern: metacluster_1/pattern_4

Significance: 0.0016324999999999998

Absent
Adipose;D;En

Pattern: metacluster_0/pattern_22

Significance: 0.032548400000000005

Absent
LNG_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_20

Significance: 0.05562

Absent
AML;D;En

Pattern: metacluster_1/pattern_18

Significance: 0.030783799999999997

Absent
NIH3T3_FBROBLST;D;En

Pattern: metacluster_1/pattern_20

Significance: 0.040293

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0496346

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

Pattern: metacluster_0/pattern_17

Significance: 0.028377299999999998

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.00330452

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

Pattern: metacluster_0/pattern_2

Significance: 0.0510878

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

Pattern: metacluster_0/pattern_3

Significance: 0.0239296

Absent
Adrenal;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.00948403

Absent
Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0464432

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

Pattern: metacluster_1/pattern_0

Significance: 0.0395272

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

Pattern: metacluster_1/pattern_17

Significance: 0.0213502

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

Pattern: metacluster_0/pattern_6

Significance: 0.00243275

Absent
No Cell types only Homer finds Hoxb8