In [1]:
# Parameters
data_name = "Zic2"
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 11:53:32,624 [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)
Zic2: Motif: M09011_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Zic2: #8

Cell typeModiscoHomer
ES;E14;A;GEO

Pattern: metacluster_0/pattern_14

Significance: 7.522709999999999e-07

Pattern: motif8.motif

Significance: 0.0271343

ES;129SV_Jae_C57BL6J;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 8.42972e-05

Pattern: motif2.motif

Significance: 0.04432

ES;ZhBTc4;2;D;GEO

Pattern: metacluster_1/pattern_9

Significance: 5.48175e-13

Pattern: motif1.motif

Significance: 0.0190206

ENDRM_ESD;A;GEO

Pattern: metacluster_1/pattern_2

Significance: 1.39327e-08

Pattern: motif4.motif

Significance: 0.000656977

ES;ZhBTc4;untreated;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 2.2137e-06

Pattern: motif1.motif

Significance: 0.04745630000000001

ES;129S1_SVImJ_CJ7;D;En

Pattern: metacluster_1/pattern_7

Significance: 7.340800000000001e-09

Pattern: motif1.motif

Significance: 0.00397766

ES;E14;D;En

Pattern: metacluster_1/pattern_7

Significance: 2.92795e-07

Pattern: motif16.motif

Significance: 0.0264351

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

Pattern: metacluster_0/pattern_9

Significance: 0.00021680900000000002

Pattern: motif1.motif

Significance: 0.0333727

Unique Cell types only TF-MoDISco finds Zic2: #22

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

Pattern: metacluster_0/pattern_4

Significance: 0.0182034

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

Pattern: metacluster_0/pattern_8

Significance: 2.682e-05

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

Pattern: metacluster_0/pattern_5

Significance: 0.013845099999999999

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

Pattern: metacluster_0/pattern_19

Significance: 0.00106366

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: 0.0184554

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

Pattern: metacluster_0/pattern_14

Significance: 0.0558495

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

Pattern: metacluster_0/pattern_15

Significance: 0.05315399999999999

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

Pattern: metacluster_0/pattern_4

Significance: 0.000221182

/

Pattern: metacluster_0/pattern_24

Significance: 0.039072699999999995

Absent
DP;A;CL

Pattern: metacluster_1/pattern_20

Significance: 0.0371431

Absent
ES;E14;A;CL

Pattern: metacluster_1/pattern_13

Significance: 8.081470000000001e-07

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.05341130000000001

Absent
SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_1

Significance: 0.0413716

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

Pattern: metacluster_0/pattern_17

Significance: 3.8288000000000005e-08

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

Pattern: metacluster_1/pattern_7

Significance: 2.56189e-09

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

Pattern: metacluster_0/pattern_23

Significance: 2.0803800000000002e-05

Absent
ES;D0;D;GEO

Pattern: metacluster_0/pattern_13

Significance: 4.17321e-06

Absent
ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_16

Significance: 4.8958699999999996e-05

Absent
ES;J1;A;CL

Pattern: metacluster_1/pattern_11

Significance: 4.9274099999999996e-05

Absent
ES;v6.5;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 4.80799e-13

/

Pattern: metacluster_1/pattern_24

Significance: 0.039732199999999995

Absent
CRBLM;D;En

Pattern: metacluster_1/pattern_15

Significance: 1.14338e-05

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_15

Significance: 0.0516101

Absent
Unique Cell types only Homer finds Zic2: #32

Cell typeModiscoHomer
prePLSM_B;A;GEOAbsent

Pattern: motif1.motif

Significance: 0.0563471

GC_B;A;CLAbsent

Pattern: motif1.motif

Significance: 0.055550800000000004

preB_BMD;A;GEOAbsent

Pattern: motif1.motif

Significance: 0.0378622

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: 0.0530868

aB_LSP+a_d_dextran;A;CLAbsent

Pattern: motif2.motif

Significance: 0.0323437

aB_CD40+IL4;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0431789

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: 0.030776400000000002

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: 0.012737799999999999

Erythroblast;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0229848

NPC;mE6;A;GEOAbsent

Pattern: motif11.motif

Significance: 0.05612140000000001

DP3a;A;CLAbsent

Pattern: motif12.motif

Significance: 0.0596114

DP3b;A;CLAbsent

Pattern: motif1.motif

Significance: 0.0530831

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: 0.028736599999999998

gamma_delta_TCR_M-S-;A;CLAbsent

Pattern: motif8.motif

Significance: 0.0351767

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: 0.0422111

ILC3_AbxGRMFree;A;GEOAbsent

Pattern: motif1.motif

Significance: 0.018341800000000002

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

Pattern: motif1.motif

Significance: 0.0356414