In [1]:
# Parameters
data_name = "E2f3"
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 11:02:11,657 [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)
E2f3: Motif: M09038_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds E2f3: #4

Cell typeModiscoHomer
BRN;CRBLM;A;CL

Pattern: metacluster_0/pattern_4

Significance: 0.0504394

Pattern: motif20.motif

Significance: 0.030731400000000002

CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.0316115

Pattern: motif10.motif

Significance: 0.0128452

BRN;MDL_OBLNGT;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.0336396

/

Pattern: metacluster_1/pattern_7

Significance: 0.0421736

Pattern: motif17.motif

Significance: 0.0433676

naiveT;CD4+_CD44-_CD62L-_CD25-;A;CL

Pattern: metacluster_1/pattern_2

Significance: 0.0451066

Pattern: motif2.motif

Significance: 0.0590682

Unique Cell types only TF-MoDISco finds E2f3: #37

Cell typeModiscoHomer
MPP;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.0476927

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

Pattern: metacluster_1/pattern_2

Significance: 0.029418

Absent
SKLTL_Muscle;8wks;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.054408500000000005

Absent
plasmaB;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0332912

Absent
preB_BMD;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.046560000000000004

Absent
aB_LPS+IL21;A;CL

Pattern: metacluster_1/pattern_0

Significance: 0.0370225

Absent
aB_LSP+a_d_dextran;A;CL

Pattern: metacluster_0/pattern_10

Significance: 0.0490626

Absent
Mast;A;CL

Pattern: metacluster_0/pattern_2

Significance: 0.051020300000000005

/

Pattern: metacluster_0/pattern_11

Significance: 0.0209009

Absent
ROD_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.0436745

Absent
ROD_PHT_RCPTR_RTN;A;GEO

Pattern: metacluster_0/pattern_3

Significance: 0.056560900000000004

Absent
BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0574609

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

Pattern: metacluster_0/pattern_0

Significance: 0.037839300000000006

Absent
CD4+CD8intTCR+CD69+CD24+;MHC2defM;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.047029699999999994

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

Pattern: metacluster_0/pattern_0

Significance: 0.0535331

Absent
DP;A;CL

Pattern: metacluster_1/pattern_2

Significance: 0.059526800000000005

Absent
ES;MEF;A;CL

Pattern: metacluster_1/pattern_2

Significance: 0.0290017

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_0

Significance: 0.0417045

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_17

Significance: 0.0541851

Absent
npES;ZHBTC4;doxyc;treat;A;GEO

Pattern: metacluster_0/pattern_12

Significance: 0.013068799999999998

Absent
ES;ZhBTc4;untreated;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.00827758

Absent
Mammary;A;CL

Pattern: metacluster_0/pattern_0

Significance: 0.0274382

Absent
ES;JM8.N4;Asynch;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.053132900000000004

Absent
testis;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.0444462

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_1

Significance: 0.0537431

Absent
ES;JM8.N4;Mitosis;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.0232955

/

Pattern: metacluster_0/pattern_27

Significance: 0.029658499999999997

Absent
pErythroblast;A;En

Pattern: metacluster_1/pattern_2

Significance: 0.0490515

Absent
eye-NRL_RTN;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.05635830000000001

/

Pattern: metacluster_0/pattern_17

Significance: 0.0562893

Absent
NRV;Eye-OPTC;A;CL

Pattern: metacluster_0/pattern_1

Significance: 0.0460775

/

Pattern: metacluster_0/pattern_20

Significance: 0.0292877

Absent
DC_LPS;4h;A;En

Pattern: metacluster_1/pattern_9

Significance: 0.0477589

Absent
BRN;PTMN;A;CL

Pattern: metacluster_1/pattern_2

Significance: 0.0417086

Absent
SHRT_TRM_HSC;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.058823900000000005

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

Pattern: metacluster_0/pattern_9

Significance: 0.0485449

Absent
ILC2;A;CL

Pattern: metacluster_1/pattern_2

Significance: 0.0561581

Absent
aB_LPS+IL4+Oligomycin_24h;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0378473

Absent
CLP;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.031061599999999998

Absent
ES;E14;A;GEO

Pattern: metacluster_0/pattern_1

Significance: 0.050828

/

Pattern: metacluster_0/pattern_25

Significance: 0.0277225

Absent
ILC2_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_1

Significance: 0.026461400000000003

Absent
Unique Cell types only Homer finds E2f3: #13

Cell typeModiscoHomer
NK_LVRD;CD19-CD3e-NKp46+DX+Trail-;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.0592804

aB;A;GEOAbsent

Pattern: motif15.motif

Significance: 0.0515462

gamma_delta_TCR;A;CLAbsent

Pattern: motif3.motif

Significance: 0.023415000000000002

NPC;mE6;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.05943480000000001

Treg;CD4+_CD25+;D;GEOAbsent

Pattern: motif3.motif

Significance: 0.0426581

ILC3_AbxGRMFree;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.027991000000000002

iVIP_NRN;A;GEOAbsent

Pattern: motif18.motif

Significance: 0.055161

TExh_SPLND;CD8+;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0487338

Th2_nippo;A;CLAbsent

Pattern: motif3.motif

Significance: 0.0575972

wES;Hnd_BRN;E11.5;D;EnAbsent

Pattern: motif14.motif

Significance: 0.0566505

npES;ZHBTC4;Brg1fl_fl;untreat;A;GEOAbsent

Pattern: motif2.motif

Significance: 0.0447737

NIH3T3_FBROBLST;D;EnAbsent

Pattern: motif3.motif

Significance: 0.036175599999999995

T_MLD;TCR_SV40-I_CD8+;D5;A;GEOAbsent

Pattern: motif14.motif

Significance: 0.055903499999999995