In [1]:
# Parameters
data_name = "Nr2e3"
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 11:25:36,052 [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)
Nr2e3: Motif: M09328_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Nr2e3: #6

Cell typeModiscoHomer
LVR;8wks;D;En

Pattern: metacluster_0/pattern_0

Significance: 0.00669814

Pattern: motif2.motif

Significance: 0.0241931

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

Pattern: metacluster_0/pattern_17

Significance: 0.00061586

Pattern: motif18.motif

Significance: 0.00645599

Adipocyte_3T3-L1D;C57BL6;D8;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.019532499999999998

Pattern: motif10.motif

Significance: 0.0198068

LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_0

Significance: 0.00521397

Pattern: motif1.motif

Significance: 0.026467400000000002

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

Pattern: metacluster_0/pattern_17

Significance: 0.000580014

Pattern: motif20.motif

Significance: 0.00444447

placenta;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.000875386

Pattern: motif12.motif

Significance: 0.00331978

Unique Cell types only TF-MoDISco finds Nr2e3: #17

Cell typeModiscoHomer
T_MLD;TCR_SV40-I_CD8+;D28;A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.0369854

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

Pattern: metacluster_1/pattern_15

Significance: 0.00207181

Absent
LVR;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.0419981

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

Pattern: metacluster_0/pattern_22

Significance: 0.0485996

/

Pattern: metacluster_0/pattern_23

Significance: 0.000665488

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

Pattern: metacluster_0/pattern_15

Significance: 0.000532514

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

Pattern: metacluster_0/pattern_24

Significance: 0.000764496

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

Pattern: metacluster_0/pattern_20

Significance: 0.00306834

/

Pattern: metacluster_0/pattern_21

Significance: 0.00167892

Absent
LRG_INTSTN;8wks;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.0281647

Absent
CD4+CD8-TCR+CD25-Foxp3+;A;CL

Pattern: metacluster_1/pattern_23

Significance: 0.00738164

Absent
SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.0213642

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_1

Significance: 0.050881300000000004

Absent
T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.037740800000000005

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.0359149

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

Pattern: metacluster_0/pattern_17

Significance: 0.00122248

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

Pattern: metacluster_0/pattern_16

Significance: 0.00119308

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_23

Significance: 0.00127789

Absent
KDNY;8wks;D;En

Pattern: metacluster_1/pattern_1

Significance: 0.0071611999999999995

Absent
Unique Cell types only Homer finds Nr2e3: #3

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

Pattern: motif17.motif

Significance: 0.010107099999999999

wES;MSDRM;E11.5;D;EnAbsent

Pattern: motif19.motif

Significance: 0.00555163

ThMS_MEC;Aire++;A;GEOAbsent

Pattern: motif15.motif

Significance: 0.041125