In [1]:
# Parameters
data_name = "Pparg"
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 11:29:47,987 [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)
Pparg: Motif: M09612_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Pparg: #18

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

Pattern: metacluster_0/pattern_5

Significance: 0.00563165

Pattern: motif17.motif

Significance: 1.61126e-05

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

Pattern: metacluster_0/pattern_14

Significance: 0.0487536

/

Pattern: metacluster_0/pattern_17

Significance: 0.00029104099999999997

Pattern: motif18.motif

Significance: 5.6407200000000004e-05

LVR;8wks;D;En

Pattern: metacluster_0/pattern_0

Significance: 4.61804e-05

Pattern: motif2.motif

Significance: 0.000330375

LRG_INTSTN;8wks;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.000739843

Pattern: motif3.motif

Significance: 0.00639785

Adipocyte_3T3-L1D;C57BL6;D8;D;En

Pattern: metacluster_1/pattern_9

Significance: 3.22303e-10

Pattern: motif10.motif

Significance: 2.57663e-07

LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_0

Significance: 3.50338e-05

Pattern: motif1.motif

Significance: 0.000623537

RTN;D1;D;En

Pattern: metacluster_0/pattern_10

Significance: 0.00381086

Pattern: motif8.motif

Significance: 0.0120972

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_17

Significance: 0.00333662

Pattern: motif21.motif

Significance: 0.00934712

ILC3;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.0224188

Pattern: motif10.motif

Significance: 0.000916003

iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.03764869999999999

Pattern: motif10.motif

Significance: 0.00347573

ILC3_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.0240708

Pattern: motif8.motif

Significance: 0.000345551

NCR+ILC3;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0107285

Pattern: motif5.motif

Significance: 0.043611800000000006

placenta;A;CL

Pattern: metacluster_0/pattern_11

Significance: 1.7704000000000002e-05

Pattern: motif12.motif

Significance: 0.00012774

SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.000187002

Pattern: motif5.motif

Significance: 0.00626326

LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_1

Significance: 0.00038837199999999995

Pattern: motif2.motif

Significance: 0.00531345

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

Pattern: metacluster_0/pattern_15

Significance: 0.0194509

/

Pattern: metacluster_0/pattern_17

Significance: 0.000355165

Pattern: motif20.motif

Significance: 0.00012394200000000001

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

Pattern: metacluster_0/pattern_13

Significance: 0.0542436

/

Pattern: metacluster_0/pattern_16

Significance: 0.00021501700000000002

Pattern: motif15.motif

Significance: 0.03524

KDNY;8wks;D;En

Pattern: metacluster_1/pattern_1

Significance: 3.53171e-05

Pattern: motif2.motif

Significance: 0.0005217630000000001

Unique Cell types only TF-MoDISco finds Pparg: #41

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

Pattern: metacluster_1/pattern_17

Significance: 0.00648828

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

Pattern: metacluster_0/pattern_23

Significance: 0.000333324

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

Pattern: metacluster_0/pattern_17

Significance: 0.027874200000000002

Absent
STMCH;P0;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.024925599999999996

Absent
B;B220_CD43;A;GEO

Pattern: metacluster_1/pattern_28

Significance: 0.059797800000000005

Absent
ROD_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.00714618

Absent
BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.00121255

/

Pattern: metacluster_1/pattern_18

Significance: 0.050936300000000004

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

Pattern: metacluster_0/pattern_14

Significance: 0.053231600000000004

/

Pattern: metacluster_0/pattern_17

Significance: 0.00037941900000000003

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

Pattern: metacluster_1/pattern_17

Significance: 0.0579774

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

Pattern: metacluster_0/pattern_10

Significance: 0.053408300000000006

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

Pattern: metacluster_1/pattern_12

Significance: 0.00357319

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

Pattern: metacluster_0/pattern_8

Significance: 0.00187225

/

Pattern: metacluster_0/pattern_15

Significance: 0.000225089

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

Pattern: metacluster_0/pattern_21

Significance: 0.049201800000000004

/

Pattern: metacluster_0/pattern_24

Significance: 0.000397254

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

Pattern: metacluster_0/pattern_20

Significance: 0.000370153

/

Pattern: metacluster_0/pattern_21

Significance: 0.000264143

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

Pattern: metacluster_1/pattern_23

Significance: 0.0574207

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

Pattern: metacluster_1/pattern_14

Significance: 0.0520505

Absent
DP;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.00170914

Absent
ePyramidal_NRN;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.029319599999999998

Absent
ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0198708

Absent
Corticotrope;A;GEO

Pattern: metacluster_0/pattern_20

Significance: 0.00046063699999999996

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.0061719999999999995

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

Pattern: metacluster_1/pattern_23

Significance: 0.049036199999999995

Absent
Adrenal;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.054765499999999995

Absent
ES;D0;D;GEO

Pattern: metacluster_0/pattern_10

Significance: 0.0350154

Absent
ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_20

Significance: 0.00140117

Absent
WHL_BRN;8wks;D;GEO

Pattern: metacluster_1/pattern_20

Significance: 0.000730849

Absent
NCR+ILC3+IL23;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.024244799999999997

Absent
ES;129S1_SVImJ_CJ7;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.0474311

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_23

Significance: 0.0214039

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

Pattern: metacluster_1/pattern_15

Significance: 1.91153e-05

Absent
ES;J1;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0388606

Absent
LVR;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.000787512

Absent
ES;129SV_Jae_C57BL6J;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.0237487

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_16

Significance: 0.0365389

Absent
RTN;A;GEO

Pattern: metacluster_0/pattern_9

Significance: 0.0368789

Absent
ILC1;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0424801

Absent
CRBLM;D;En

Pattern: metacluster_1/pattern_14

Significance: 0.00091534

Absent
ILC1_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.00711668

Absent
T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.00663931

Absent
Muller;P12;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.0060868

Absent
WHL_BRN;8wks;D;En

Pattern: metacluster_1/pattern_16

Significance: 0.00549359

Absent
Unique Cell types only Homer finds Pparg: #2

Cell typeModiscoHomer
DC_BMD;A;CLAbsent

Pattern: motif13.motif

Significance: 0.029620999999999998

wES;MSDRM;E11.5;D;EnAbsent

Pattern: motif19.motif

Significance: 0.000104135