In [1]:
# Parameters
data_name = "Zic3"
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 11:53:45,526 [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)
Zic3: Motif: M02936_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Zic3: #7

Cell typeModiscoHomer
ES;129SV_Jae_C57BL6J;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.00140413

Pattern: motif2.motif

Significance: 0.04432

ES;ZhBTc4;2;D;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.034766000000000005

Pattern: motif1.motif

Significance: 0.0190206

ILC3_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.051698400000000005

Pattern: motif1.motif

Significance: 0.018341800000000002

ENDRM_ESD;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 0.00687765

Pattern: motif4.motif

Significance: 0.046587800000000006

ES;ZhBTc4;untreated;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0596405

Pattern: motif1.motif

Significance: 0.05250930000000001

ES;129S1_SVImJ_CJ7;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.022020400000000002

Pattern: motif1.motif

Significance: 0.00397766

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

Pattern: metacluster_0/pattern_9

Significance: 0.010668500000000001

Pattern: motif1.motif

Significance: 0.0333727

Unique Cell types only TF-MoDISco finds Zic3: #29

Cell typeModiscoHomer
Tfh_mut;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.0463947

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

Pattern: metacluster_0/pattern_4

Significance: 0.0154197

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

Pattern: metacluster_0/pattern_8

Significance: 0.0191055

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

Pattern: metacluster_0/pattern_5

Significance: 0.00817864

/

Pattern: metacluster_0/pattern_15

Significance: 0.05388380000000001

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

Pattern: metacluster_0/pattern_19

Significance: 0.028126799999999997

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

Pattern: metacluster_0/pattern_5

Significance: 0.0452741

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

Pattern: metacluster_0/pattern_10

Significance: 0.00762

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

Pattern: metacluster_0/pattern_14

Significance: 0.0474903

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

Pattern: metacluster_0/pattern_15

Significance: 0.034069800000000004

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

Pattern: metacluster_0/pattern_4

Significance: 0.0439561

/

Pattern: metacluster_0/pattern_24

Significance: 0.034099800000000006

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_15

Significance: 0.0451099

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

Pattern: metacluster_0/pattern_6

Significance: 0.0536082

/

Pattern: metacluster_0/pattern_14

Significance: 0.059499300000000005

Absent
ES;E14;A;CL

Pattern: metacluster_1/pattern_13

Significance: 3.30403e-05

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0409541

Absent
SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_1

Significance: 0.057927599999999996

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

Pattern: metacluster_0/pattern_17

Significance: 0.040897

Absent
npES;ZHBTC4;Brg1fl_fl;untreat;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.00327928

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

Pattern: metacluster_0/pattern_23

Significance: 9.85325e-05

Absent
NRV;Eye-OPTC;A;CL

Pattern: metacluster_0/pattern_20

Significance: 0.0427844

Absent
ES;D0;D;GEO

Pattern: metacluster_0/pattern_13

Significance: 3.82304e-05

Absent
ES;E14;D;En

Pattern: metacluster_1/pattern_7

Significance: 1.37076e-05

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_16

Significance: 0.00107242

Absent
ES;J1;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.000576757

Absent
ES;E14;A;GEO

Pattern: metacluster_0/pattern_14

Significance: 9.06098e-05

/

Pattern: metacluster_0/pattern_18

Significance: 0.0199274

Absent
ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0277431

/

Pattern: metacluster_1/pattern_24

Significance: 0.047617

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

Pattern: metacluster_0/pattern_8

Significance: 0.059228699999999995

Absent
CRBLM;D;En

Pattern: metacluster_1/pattern_15

Significance: 0.0037954

Absent
416B_MP;CD34+;D;En

Pattern: metacluster_1/pattern_16

Significance: 0.055573300000000006

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_15

Significance: 0.0501298

Absent
Unique Cell types only Homer finds Zic3: #29

Cell typeModiscoHomer
prePLSM_B;A;GEOAbsent

Pattern: motif1.motif

Significance: 0.0573035

GC_B;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0565565

preB_BMD;A;GEOAbsent

Pattern: motif1.motif

Significance: 0.053265599999999996

B_SPLND;A;GEOAbsent

Pattern: motif4.motif

Significance: 0.0295317

aB_LPS;A;CLAbsent

Pattern: motif1.motif

Significance: 0.054056799999999995

aB_LPS+IL21;A;CLAbsent

Pattern: motif2.motif

Significance: 0.054071400000000006

aB_LSP+a_d_dextran;A;CLAbsent

Pattern: motif2.motif

Significance: 0.0323437

aB_CD40+IL4;A;CLAbsent

Pattern: motif1.motif

Significance: 0.049511599999999996

A20;B-lymphoma;D;EnAbsent

Pattern: motif1.motif

Significance: 0.033336000000000005

ROD_PHT_RCPTR;A;GEOAbsent

Pattern: motif1.motif

Significance: 0.028006200000000002

ROD_PHT_RCPTR_RTN;A;GEOAbsent

Pattern: motif1.motif

Significance: 0.0367667

Tfr;CD4+CD44+CXCR5+PD1+CD25+;A;CLAbsent

Pattern: motif1.motif

Significance: 0.033132199999999994

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

Pattern: motif1.motif

Significance: 0.031896100000000004

largeDPprecrsr;CD4+CD8+CD69-;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0565764

CD4+CD8intTCR+CD69+CD24+;B2defM;A;CLAbsent

Pattern: motif3.motif

Significance: 0.0408258

CD4+CD8-TCR+CD25+Foxp3+;A;CLAbsent

Pattern: motif1.motif

Significance: 0.014957699999999999

Erythroblast;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0229848

DP3b;A;CLAbsent

Pattern: motif1.motif

Significance: 0.055311900000000004

LNG;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0571447

placenta;A;CLAbsent

Pattern: motif11.motif

Significance: 0.0522121

pErythroblast;A;EnAbsent

Pattern: motif1.motif

Significance: 0.0575775

ES;ZhBTc4;1;D;GEOAbsent

Pattern: motif1.motif

Significance: 0.0273889

gamma_delta_TCR;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0282796

gamma_delta_TCR_M-S-;A;CLAbsent

Pattern: motif8.motif

Significance: 0.044691800000000004

immatureB_SPLND;CD43-_CD11b-;D;GEOAbsent

Pattern: motif1.motif

Significance: 0.0336453

aB_LPS+IL4_24h;A;CLAbsent

Pattern: motif2.motif

Significance: 0.029616800000000002

ES;F1216;A;GEOAbsent

Pattern: motif1.motif

Significance: 0.043979199999999996

abTreg;CD4+_CD25+;8wks;D;EnAbsent

Pattern: motif1.motif

Significance: 0.0504604

T_MLD;TCR_SV40-I_CD8+;D7;A;GEOAbsent

Pattern: motif1.motif

Significance: 0.0394704