In [1]:
# Parameters
data_name = "Rarb"
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 11:30:38,150 [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)
Rarb: Motif: M03424_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Rarb: #12

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

Pattern: metacluster_0/pattern_5

Significance: 0.00443293

Pattern: motif11.motif

Significance: 0.037529900000000005

/

Pattern: motif17.motif

Significance: 0.030675599999999997

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

Pattern: metacluster_0/pattern_14

Significance: 0.0425919

/

Pattern: metacluster_0/pattern_17

Significance: 0.04051830000000001

Pattern: motif13.motif

Significance: 0.0503435

/

Pattern: motif18.motif

Significance: 0.0508861

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

Pattern: metacluster_1/pattern_12

Significance: 0.00336206

Pattern: motif8.motif

Significance: 0.0582553

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

Pattern: metacluster_0/pattern_8

Significance: 0.00151561

/

Pattern: metacluster_0/pattern_15

Significance: 0.0247595

Pattern: motif9.motif

Significance: 0.045064

LVR;8wks;D;En

Pattern: metacluster_0/pattern_0

Significance: 0.0203873

Pattern: motif2.motif

Significance: 0.0112038

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

Pattern: metacluster_0/pattern_10

Significance: 0.0325436

Pattern: motif9.motif

Significance: 0.05306469999999999

LRG_INTSTN;8wks;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.032400599999999995

Pattern: motif3.motif

Significance: 0.025896600000000002

LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_0

Significance: 0.021425299999999998

Pattern: motif1.motif

Significance: 0.022453400000000002

wES;MSDRM;E11.5;D;En

Pattern: metacluster_0/pattern_11

Significance: 0.0269567

Pattern: motif14.motif

Significance: 0.0534936

/

Pattern: motif19.motif

Significance: 0.05950219999999999

npES;ZHBTC4;Brg1fl_fl;untreat;A;GEO

Pattern: metacluster_1/pattern_23

Significance: 0.0508331

Pattern: motif32.motif

Significance: 0.0261219

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

Pattern: metacluster_0/pattern_13

Significance: 0.0542436

/

Pattern: metacluster_0/pattern_16

Significance: 0.052235800000000006

Pattern: motif15.motif

Significance: 0.0413923

KDNY;8wks;D;En

Pattern: metacluster_1/pattern_1

Significance: 0.00518681

Pattern: motif2.motif

Significance: 0.024848099999999998

Unique Cell types only TF-MoDISco finds Rarb: #28

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

Pattern: metacluster_1/pattern_17

Significance: 0.00790269

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

Pattern: metacluster_0/pattern_22

Significance: 0.0519057

/

Pattern: metacluster_0/pattern_23

Significance: 0.027713099999999997

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

Pattern: metacluster_0/pattern_17

Significance: 0.020685299999999997

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

Pattern: metacluster_1/pattern_16

Significance: 0.058144799999999996

Absent
STMCH;P0;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.023400099999999997

Absent
GCN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.0248036

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

Pattern: metacluster_0/pattern_15

Significance: 0.0194509

/

Pattern: metacluster_0/pattern_17

Significance: 0.048268900000000003

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

Pattern: metacluster_0/pattern_14

Significance: 0.053231600000000004

/

Pattern: metacluster_0/pattern_17

Significance: 0.05417040000000001

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

Pattern: metacluster_1/pattern_17

Significance: 0.0441314

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

Pattern: metacluster_1/pattern_8

Significance: 0.013730100000000002

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

Pattern: metacluster_0/pattern_21

Significance: 0.0461277

/

Pattern: metacluster_0/pattern_24

Significance: 0.0509108

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

Pattern: metacluster_0/pattern_13

Significance: 0.00947147

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

Pattern: metacluster_0/pattern_20

Significance: 0.0328065

/

Pattern: metacluster_0/pattern_21

Significance: 0.025281400000000002

/

Pattern: metacluster_0/pattern_22

Significance: 0.0143561

/

Pattern: metacluster_0/pattern_24

Significance: 0.0426855

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

Pattern: metacluster_1/pattern_23

Significance: 0.0351704

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

Pattern: metacluster_1/pattern_14

Significance: 0.0486323

Absent
SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.0564344

Absent
ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.00894069

Absent
Melanotrope;A;GEO

Pattern: metacluster_0/pattern_13

Significance: 0.05986469999999999

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.00665618

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.054093499999999996

Absent
416B_MP;CD34+;D;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.05515319999999999

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_23

Significance: 0.0214039

Absent
ES;J1;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0356278

Absent
LVR;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.012599299999999999

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_16

Significance: 0.040730800000000005

Absent
Heart;P0;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.012128299999999998

Absent
ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0583648

Absent
T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.00772344

Absent
Unique Cell types only Homer finds Rarb: #7

Cell typeModiscoHomer
Adipocyte_3T3-L1D;C57BL6;D8;D;EnAbsent

Pattern: motif10.motif

Significance: 0.048557300000000005

DC_BMD;A;CLAbsent

Pattern: motif13.motif

Significance: 0.026607799999999997

gamma_delta_TCR_MCR;A;CLAbsent

Pattern: motif4.motif

Significance: 0.052448400000000006

Erythroid;Ter119+;A;GEOAbsent

Pattern: motif7.motif

Significance: 0.0310718

ES;ZhBTc4;untreated;A;GEOAbsent

Pattern: motif19.motif

Significance: 0.0248269

npES;ZHBTC4;doxyc;treat;A;GEOAbsent

Pattern: motif14.motif

Significance: 0.03941

ES;129S1_SVImJ_CJ7;D;EnAbsent

Pattern: motif11.motif

Significance: 0.05457290000000001