In [1]:
# Parameters
data_name = "Rara"
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 11:30:18,650 [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)
Rara: Motif: M09329_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Rara: #17

Cell typeModiscoHomer
wES;5th_Rhmbmr;E8.5;A;GEO

Pattern: metacluster_0/pattern_5

Significance: 0.0066322

Pattern: motif11.motif

Significance: 0.0431267

/

Pattern: motif17.motif

Significance: 0.027722000000000004

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

Pattern: metacluster_0/pattern_14

Significance: 0.05765750000000001

/

Pattern: metacluster_0/pattern_17

Significance: 0.0195649

Pattern: motif18.motif

Significance: 0.058038900000000004

LVR;8wks;D;En

Pattern: metacluster_0/pattern_0

Significance: 0.017383000000000003

Pattern: motif2.motif

Significance: 0.00968845

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

Pattern: metacluster_0/pattern_8

Significance: 0.006492

/

Pattern: metacluster_0/pattern_15

Significance: 0.0531196

Pattern: motif9.motif

Significance: 0.0333923

ES;ZhBTc4;2;D;GEO

Pattern: metacluster_1/pattern_12

Significance: 6.24076e-05

Pattern: motif12.motif

Significance: 0.0201138

ES;D0;D;GEO

Pattern: metacluster_0/pattern_10

Significance: 1.21289e-06

Pattern: motif14.motif

Significance: 0.00766523

Adipocyte_3T3-L1D;C57BL6;D8;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.05832419999999999

Pattern: motif10.motif

Significance: 0.050397500000000005

LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_0

Significance: 0.0199313

/

Pattern: metacluster_1/pattern_17

Significance: 2.55205e-07

Pattern: motif1.motif

Significance: 0.022453400000000002

LRG_INTSTN;8wks;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.029299000000000002

Pattern: motif3.motif

Significance: 0.0223794

wES;MSDRM;E11.5;D;En

Pattern: metacluster_0/pattern_11

Significance: 0.0240689

Pattern: motif14.motif

Significance: 0.0557572

/

Pattern: motif19.motif

Significance: 0.05950219999999999

npES;ZHBTC4;doxyc;treat;A;GEO

Pattern: metacluster_0/pattern_13

Significance: 2.38314e-05

Pattern: motif14.motif

Significance: 0.0135154

npES;ZHBTC4;Brg1fl_fl;untreat;A;GEO

Pattern: metacluster_1/pattern_23

Significance: 0.03731230000000001

Pattern: motif32.motif

Significance: 0.0583502

ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.00176915

Pattern: motif22.motif

Significance: 1.37287e-05

Adrenal;A;CL

Pattern: metacluster_1/pattern_0

Significance: 0.0006707000000000001

/

Pattern: metacluster_1/pattern_15

Significance: 0.00058563

Pattern: motif2.motif

Significance: 0.000131698

ES;129S1_SVImJ_CJ7;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.00135566

Pattern: motif18.motif

Significance: 0.0491168

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

Pattern: metacluster_0/pattern_13

Significance: 0.0542436

/

Pattern: metacluster_0/pattern_16

Significance: 0.0442209

Pattern: motif15.motif

Significance: 0.0390329

KDNY;8wks;D;En

Pattern: metacluster_1/pattern_1

Significance: 0.0430761

Pattern: motif2.motif

Significance: 0.0219902

Unique Cell types only TF-MoDISco finds Rara: #35

Cell typeModiscoHomer
T_MLD;TCR_SV40-I_CD8+;D28;A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.0370774

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

Pattern: metacluster_0/pattern_22

Significance: 0.0307322

/

Pattern: metacluster_0/pattern_23

Significance: 0.023699400000000002

Absent
memT_tmrD_lstr;TCR_SV40-I_CD8+;D14;A;GEO

Pattern: metacluster_0/pattern_17

Significance: 0.017946200000000002

Absent
memT_tmrD;TCR_SV40-I_CD8+;D14;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.05942240000000001

Absent
STMCH;P0;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.0448791

Absent
416B;HMTP_SPNSN;CD34+;D;En

Pattern: metacluster_1/pattern_18

Significance: 1.1830599999999998e-09

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

Pattern: metacluster_0/pattern_15

Significance: 0.022949900000000002

/

Pattern: metacluster_0/pattern_17

Significance: 0.054755899999999996

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

Pattern: metacluster_0/pattern_14

Significance: 0.053231600000000004

/

Pattern: metacluster_0/pattern_17

Significance: 0.0292824

Absent
Tfr_mut;CD4+CD44+CXCR5+PD1+CD25+;A;CL

Pattern: metacluster_1/pattern_17

Significance: 0.0393972

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

Pattern: metacluster_1/pattern_8

Significance: 0.032121

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

Pattern: metacluster_0/pattern_10

Significance: 0.0325436

Absent
wES;posterior;1;E9.5;A;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.00579709

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

Pattern: metacluster_0/pattern_21

Significance: 0.0411876

/

Pattern: metacluster_0/pattern_24

Significance: 0.0393834

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

Pattern: metacluster_0/pattern_13

Significance: 0.0181727

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

Pattern: metacluster_0/pattern_20

Significance: 0.035133099999999994

/

Pattern: metacluster_0/pattern_21

Significance: 0.0169811

/

Pattern: metacluster_0/pattern_22

Significance: 0.0209532

/

Pattern: metacluster_0/pattern_24

Significance: 0.029477

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

Pattern: metacluster_1/pattern_23

Significance: 0.058237199999999996

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

Pattern: metacluster_1/pattern_14

Significance: 0.058740999999999995

Absent
SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.0477116

Absent
ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.036629699999999994

Absent
Melanotrope;A;GEO

Pattern: metacluster_0/pattern_13

Significance: 0.05986469999999999

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.043900800000000004

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.054093499999999996

Absent
ES;ZhBTc4;1;D;GEO

Pattern: metacluster_1/pattern_11

Significance: 1.15751e-05

Absent
416B_MP;CD34+;D;GEO

Pattern: metacluster_1/pattern_19

Significance: 3.41377e-05

Absent
ES;E14;D;En

Pattern: metacluster_1/pattern_15

Significance: 2.08261e-08

/

Pattern: metacluster_1/pattern_19

Significance: 0.031520099999999995

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_23

Significance: 0.0446582

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

Pattern: metacluster_1/pattern_15

Significance: 0.0347151

Absent
ES;J1;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0281865

Absent
LVR;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.0399865

Absent
ES;129SV_Jae_C57BL6J;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.0249739

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_16

Significance: 0.0459927

Absent
Heart;P0;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.0101148

Absent
ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.057447000000000005

Absent
416B_MP;CD34+;D;En

Pattern: metacluster_1/pattern_20

Significance: 1.51271e-07

Absent
T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0372594

Absent
Unique Cell types only Homer finds Rara: #2

Cell typeModiscoHomer
DC_BMD;A;CLAbsent

Pattern: motif13.motif

Significance: 0.027746499999999997

ES;ZhBTc4;untreated;A;GEOAbsent

Pattern: motif19.motif

Significance: 0.0583986

/

Pattern: motif21.motif

Significance: 0.049361199999999994