In [1]:
# Parameters
data_name = "Foxm1"
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 11:09:11,723 [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)
Foxm1: Motif: M09099_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Foxm1: #9

Cell typeModiscoHomer
LVR;8wks;D;En

Pattern: metacluster_0/pattern_12

Significance: 0.00264689

/

Pattern: metacluster_0/pattern_13

Significance: 0.00192257

/

Pattern: metacluster_0/pattern_14

Significance: 0.047877699999999995

Pattern: motif7.motif

Significance: 0.000868418

LNG;8wks;D;En

Pattern: metacluster_0/pattern_5

Significance: 0.000541823

Pattern: motif5.motif

Significance: 0.00413002

LNG;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.000515892

Pattern: motif5.motif

Significance: 0.000814792

npES;posterior_delA;E8.5;A;GEO

Pattern: metacluster_0/pattern_10

Significance: 0.00614551

Pattern: motif15.motif

Significance: 0.00144975

LRG_INTSTN;8wks;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.00234469

Pattern: motif10.motif

Significance: 0.00791801

STMCH;P0;D;En

Pattern: metacluster_1/pattern_4

Significance: 1.0000800000000001e-05

Pattern: motif3.motif

Significance: 7.56549e-05

LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_4

Significance: 6.457519999999999e-06

Pattern: motif4.motif

Significance: 3.70728e-05

LNG;8wks;D;GEO

Pattern: metacluster_0/pattern_5

Significance: 5.993820000000001e-07

Pattern: motif6.motif

Significance: 0.0116991

ENDRM_ESD;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 8.254800000000001e-06

Pattern: motif5.motif

Significance: 2.0492399999999997e-05

Unique Cell types only TF-MoDISco finds Foxm1: #23

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

Pattern: metacluster_0/pattern_23

Significance: 0.0056835

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

Pattern: metacluster_0/pattern_12

Significance: 0.0188351

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

Pattern: metacluster_0/pattern_13

Significance: 0.00814011

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

Pattern: metacluster_0/pattern_10

Significance: 0.0103734

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

Pattern: metacluster_1/pattern_16

Significance: 0.00302306

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

Pattern: metacluster_0/pattern_13

Significance: 0.00400057

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

Pattern: metacluster_0/pattern_14

Significance: 0.010410700000000002

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

Pattern: metacluster_0/pattern_12

Significance: 0.00420487

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

Pattern: metacluster_0/pattern_23

Significance: 0.00290488

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

Pattern: metacluster_0/pattern_13

Significance: 0.0006781819999999999

Absent
SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_22

Significance: 0.00321865

Absent
wES.CRNL_NRL_CRST;E10.5;A;GEO

Pattern: metacluster_0/pattern_19

Significance: 0.0450211

Absent
SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_9

Significance: 8.82465e-06

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_23

Significance: 0.000425185

Absent
LNG;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.00598626

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_23

Significance: 0.00798146

Absent
3134_mammaryADNCRCNM;D;GE

Pattern: metacluster_1/pattern_18

Significance: 0.0184083

/

Pattern: metacluster_1/pattern_21

Significance: 0.00822019

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.04278169999999999

Absent
KDNY;8wks;D;En

Pattern: metacluster_1/pattern_24

Significance: 0.018915400000000002

Absent
LVR;P0;D;En

Pattern: metacluster_1/pattern_14

Significance: 3.1420299999999997e-06

/

Pattern: metacluster_1/pattern_18

Significance: 0.0542183

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

Pattern: metacluster_1/pattern_5

Significance: 0.00511928

Absent
Adipocyte_3T3-L1D;C57BL6;D8;D;En

Pattern: metacluster_1/pattern_14

Significance: 0.00298785

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

Pattern: metacluster_0/pattern_19

Significance: 0.0143

Absent
No Cell types only Homer finds Foxm1