In [1]:
# Parameters
data_name = "Gmeb1"
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 11:10:44,641 [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)
Gmeb1: Motif: M00190_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Gmeb1: #3

Cell typeModiscoHomer
NTRPHL;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.0588062

Pattern: motif5.motif

Significance: 0.053299400000000004

LNG;8wks;D;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.041036800000000005

Pattern: motif3.motif

Significance: 0.040735400000000005

LNG;P0;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0541607

Pattern: motif4.motif

Significance: 0.0312776

Unique Cell types only TF-MoDISco finds Gmeb1: #27

Cell typeModiscoHomer
naiveCD8;A;CL

Pattern: metacluster_0/pattern_6

Significance: 0.027901799999999997

Absent
matureB;A;CL

Pattern: metacluster_0/pattern_15

Significance: 0.0484898

Absent
B_SPLND;A;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.0560924

Absent
3134_mammaryADNCRCNM;D;En

Pattern: metacluster_0/pattern_9

Significance: 0.056501499999999996

Absent
MEL;D;En

Pattern: metacluster_1/pattern_16

Significance: 0.028991000000000003

Absent
Mast;A;CL

Pattern: metacluster_0/pattern_6

Significance: 0.0415596

Absent
MTR_NRN_MN1;methyl3;D;En

Pattern: metacluster_0/pattern_16

Significance: 0.011858200000000001

Absent
BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.05534069999999999

Absent
CD4+CD8-TCR+CD69+CD24+CD25-;B2defM;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.048384199999999995

Absent
ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.030496199999999998

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_8

Significance: 0.038495

Absent
Melanotrope;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.0118384

Absent
testis;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.056139499999999995

Absent
Mammary_BptfKO;A;GEO

Pattern: metacluster_0/pattern_11

Significance: 0.033661699999999996

Absent
BRN;OLFTRY_BLB;A;CL

Pattern: metacluster_0/pattern_9

Significance: 0.0465721

Absent
BRN;PTMN;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.052341399999999996

Absent
BRN;CRBLM;A;CL

Pattern: metacluster_0/pattern_6

Significance: 0.020056099999999997

Absent
LNG_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0191882

Absent
naiveT_SPLND;CD4+;D;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.032773800000000006

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.0429698

Absent
NCR+ILC3;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.0290428

Absent
ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.055273199999999995

Absent
WHL_BRN;8wks;D;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.0402195

Absent
LNG;8wks;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.0316326

Absent
ILC2;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.040569

Absent
ILC1_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.055162800000000005

Absent
WHL_BRN;8wks;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.0376348

Absent
Unique Cell types only Homer finds Gmeb1: #13

Cell typeModiscoHomer
DC;A;EnAbsent

Pattern: motif5.motif

Significance: 0.021307

SKLTL_Muscle;8wks;D;EnAbsent

Pattern: motif5.motif

Significance: 0.025433400000000002

Adrenal;A;CLAbsent

Pattern: motif7.motif

Significance: 0.0497466

CRBLM;D;EnAbsent

Pattern: motif10.motif

Significance: 0.035521199999999996

MCRPHG_BMD.UnStmltd;A;GEOAbsent

Pattern: motif11.motif

Significance: 0.040926199999999996

DC_LPS;6h;A;GEOAbsent

Pattern: motif5.motif

Significance: 0.00820257

DC_LPS;2h;A;GEOAbsent

Pattern: motif6.motif

Significance: 0.00893664

416B_MP;CD34+;D;GEOAbsent

Pattern: motif6.motif

Significance: 0.0482925

NIH3T3;D;EnAbsent

Pattern: motif5.motif

Significance: 0.0195695

Muscle;A;CLAbsent

Pattern: motif9.motif

Significance: 0.0273442

NIH3T3_FBROBLST;D;EnAbsent

Pattern: motif4.motif

Significance: 0.054593100000000006

FBRBLST;8wks;D;EnAbsent

Pattern: motif11.motif

Significance: 0.03205209999999999

placenta;A;CLAbsent

Pattern: motif9.motif

Significance: 0.033801599999999994