In [1]:
# Parameters
data_name = "Tcf7l2"
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 11:42:51,028 [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)
Tcf7l2: Motif: M02646_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Tcf7l2: #5

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

Pattern: metacluster_1/pattern_11

Significance: 3.56943e-05

Pattern: motif17.motif

Significance: 0.032283299999999994

DP3b;A;CL

Pattern: metacluster_1/pattern_8

Significance: 0.00621544

Pattern: motif10.motif

Significance: 0.0173933

ISP;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.00456609

Pattern: motif19.motif

Significance: 0.0382992

ES;E14;A;CL

Pattern: metacluster_1/pattern_10

Significance: 2.80645e-05

Pattern: motif7.motif

Significance: 0.00951879

Tfh_LCMV;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.00883049

/

Pattern: metacluster_1/pattern_18

Significance: 0.000225364

Pattern: motif16.motif

Significance: 0.0180669

Unique Cell types only TF-MoDISco finds Tcf7l2: #37

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

Pattern: metacluster_1/pattern_18

Significance: 0.0549586

Absent
naiveCD8;A;CL

Pattern: metacluster_0/pattern_13

Significance: 0.00519863

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.00648404

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

Pattern: metacluster_0/pattern_16

Significance: 0.00031241

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

Pattern: metacluster_0/pattern_11

Significance: 0.0564677

/

Pattern: metacluster_0/pattern_15

Significance: 3.39935e-05

/

Pattern: metacluster_0/pattern_22

Significance: 0.0261276

/

Pattern: metacluster_0/pattern_23

Significance: 0.059443899999999994

Absent
iNKT;A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.0468047

Absent
aNonTfh;A;CL

Pattern: metacluster_1/pattern_18

Significance: 2.17354e-05

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

Pattern: metacluster_0/pattern_17

Significance: 0.0445172

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

Pattern: metacluster_0/pattern_17

Significance: 0.0372115

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

Pattern: metacluster_0/pattern_1

Significance: 0.054153

/

Pattern: metacluster_0/pattern_16

Significance: 0.0442209

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

Pattern: metacluster_1/pattern_12

Significance: 0.00685631

Absent
naiveT_mut;CD4+_CD44-_CD62L-_CD25-;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.000897393

Absent
largeDPprecrsr;CD4+CD8+CD69-;A;CL

Pattern: metacluster_1/pattern_17

Significance: 3.4727e-05

Absent
smallDPprecrsor;CD4+CD8+CD69-;A;CL

Pattern: metacluster_1/pattern_15

Significance: 5.11546e-05

/

Pattern: metacluster_1/pattern_16

Significance: 0.00617351

Absent
CD4+CD8intTCR+CD69+CD24+;B2defM;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.0162666

/

Pattern: metacluster_1/pattern_14

Significance: 0.0512102

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

Pattern: metacluster_1/pattern_12

Significance: 0.00520794

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

Pattern: metacluster_0/pattern_17

Significance: 0.032108199999999996

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

Pattern: metacluster_0/pattern_15

Significance: 0.0465366

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

Pattern: metacluster_0/pattern_3

Significance: 0.05395269999999999

/

Pattern: metacluster_0/pattern_24

Significance: 0.0377455

Absent
CD4+CD8-TCR+CD25+Foxp3-;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.00569957

Absent
CD4+CD8-TCR+CD25-Foxp3+;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.00490075

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

Pattern: metacluster_0/pattern_3

Significance: 0.0481344

/

Pattern: metacluster_0/pattern_13

Significance: 0.0494315

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

Pattern: metacluster_0/pattern_3

Significance: 0.050988900000000004

/

Pattern: metacluster_0/pattern_21

Significance: 0.0467303

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_22

Significance: 0.00158101

/

Pattern: metacluster_0/pattern_23

Significance: 0.054063

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

Pattern: metacluster_0/pattern_18

Significance: 0.00128766

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.031101099999999996

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

Pattern: metacluster_0/pattern_10

Significance: 0.050375199999999995

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.0367927

Absent
ES;ZhBTc4;2;D;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.0222448

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.0426581

Absent
apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.00507919

/

Pattern: metacluster_1/pattern_21

Significance: 0.0176945

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_23

Significance: 0.029777699999999997

Absent
ES;J1;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0354574

Absent
ES;F1216;A;GEO

Pattern: metacluster_0/pattern_7

Significance: 0.0594091

Absent
Adipose;D;En

Pattern: metacluster_0/pattern_19

Significance: 0.0524472

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

Pattern: metacluster_0/pattern_11

Significance: 0.0598842

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

Pattern: metacluster_1/pattern_3

Significance: 0.05168430000000001

Absent
Unique Cell types only Homer finds Tcf7l2: #3

Cell typeModiscoHomer
NPC;F129;A;GEOAbsent

Pattern: motif14.motif

Significance: 0.0596447

wES;RTN;E11.5;D;EnAbsent

Pattern: motif13.motif

Significance: 0.0545135

CD4+CD8+TCR+CD69-CD24-;MHC2defM;A;CLAbsent

Pattern: motif14.motif

Significance: 0.0348726