In [1]:
# Parameters
data_name = "Rarg"
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 11:30:44,588 [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)
Rarg: Motif: M03418_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Rarg: #20

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

Pattern: metacluster_0/pattern_5

Significance: 0.00724174

Pattern: motif17.motif

Significance: 0.0379323

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

Pattern: metacluster_0/pattern_14

Significance: 0.05765750000000001

/

Pattern: metacluster_0/pattern_17

Significance: 0.0173932

Pattern: motif18.motif

Significance: 0.0580435

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

Pattern: metacluster_1/pattern_12

Significance: 0.00791345

Pattern: motif8.motif

Significance: 0.0582553

KDNY;8wks;D;En

Pattern: metacluster_1/pattern_1

Significance: 0.0403837

Pattern: motif2.motif

Significance: 0.024848099999999998

ES;E14;D;En

Pattern: metacluster_1/pattern_15

Significance: 0.000207719

/

Pattern: metacluster_1/pattern_19

Significance: 0.00116194

Pattern: motif23.motif

Significance: 0.0585054

LVR;8wks;D;En

Pattern: metacluster_0/pattern_0

Significance: 0.0212981

Pattern: motif2.motif

Significance: 0.0112038

ES;ZhBTc4;1;D;GEO

Pattern: metacluster_1/pattern_11

Significance: 0.000188808

Pattern: motif14.motif

Significance: 0.0400087

LRG_INTSTN;8wks;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.0363508

Pattern: motif3.motif

Significance: 0.027571

ES;ZhBTc4;2;D;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.000348895

Pattern: motif12.motif

Significance: 0.00300698

/

Pattern: motif13.motif

Significance: 0.0380167

ES;D0;D;GEO

Pattern: metacluster_0/pattern_10

Significance: 2.6613099999999997e-06

Pattern: motif9.motif

Significance: 0.043118300000000005

/

Pattern: motif14.motif

Significance: 0.00485338

LVR;8wks;D;GEO

Pattern: metacluster_1/pattern_0

Significance: 0.024915299999999998

/

Pattern: metacluster_1/pattern_17

Significance: 3.35777e-05

Pattern: motif1.motif

Significance: 0.022453400000000002

/

Pattern: motif5.motif

Significance: 0.0397351

/

Pattern: motif14.motif

Significance: 0.0443222

Adipocyte_3T3-L1D;C57BL6;D8;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.028305900000000002

Pattern: motif10.motif

Significance: 0.0588461

ES;ZhBTc4;untreated;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.00153034

Pattern: motif19.motif

Significance: 0.00132601

/

Pattern: motif21.motif

Significance: 0.0279469

npES;ZHBTC4;doxyc;treat;A;GEO

Pattern: metacluster_0/pattern_13

Significance: 0.000314837

Pattern: motif14.motif

Significance: 0.00281218

npES;ZHBTC4;Brg1fl_fl;untreat;A;GEO

Pattern: metacluster_1/pattern_23

Significance: 0.0378403

Pattern: motif32.motif

Significance: 0.00111077

ES;C57BL_6J;R1;D;En

Pattern: metacluster_1/pattern_13

Significance: 9.9462e-05

Pattern: motif22.motif

Significance: 0.00132819

Adrenal;A;CL

Pattern: metacluster_1/pattern_0

Significance: 0.00168537

/

Pattern: metacluster_1/pattern_15

Significance: 0.000379226

Pattern: motif2.motif

Significance: 8.37478e-06

ES;129S1_SVImJ_CJ7;D;En

Pattern: metacluster_1/pattern_9

Significance: 4.1042e-05

Pattern: motif18.motif

Significance: 0.00209451

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

Pattern: metacluster_0/pattern_13

Significance: 0.0542436

/

Pattern: metacluster_0/pattern_16

Significance: 0.018452700000000002

Pattern: motif15.motif

Significance: 0.0470511

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

Pattern: metacluster_0/pattern_10

Significance: 0.0129572

Pattern: motif9.motif

Significance: 0.043267599999999996

Unique Cell types only TF-MoDISco finds Rarg: #65

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

Pattern: metacluster_1/pattern_17

Significance: 0.0548582

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

Pattern: metacluster_1/pattern_15

Significance: 0.058410800000000006

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.0398241

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

Pattern: metacluster_0/pattern_22

Significance: 0.0261276

/

Pattern: metacluster_0/pattern_23

Significance: 0.023893099999999997

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

Pattern: metacluster_0/pattern_11

Significance: 0.045490800000000005

/

Pattern: metacluster_0/pattern_17

Significance: 0.0285574

Absent
proB;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0473947

Absent
memT_tmrD;TCR_SV40-I_CD8+;D7;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0566149

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

Pattern: metacluster_1/pattern_16

Significance: 0.05942240000000001

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

Pattern: metacluster_1/pattern_16

Significance: 0.058540999999999996

Absent
STMCH;P0;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.023400099999999997

Absent
prePLSM_B;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0563621

Absent
plasmaB;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.0527028

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

Pattern: metacluster_1/pattern_18

Significance: 0.0157143

Absent
BSPHL;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.057650599999999996

Absent
GCN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.031931299999999996

Absent
aNonTfh;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0342621

Absent
aNonTfh_mut;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.038069

Absent
CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.054673400000000004

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

Pattern: metacluster_1/pattern_17

Significance: 0.0550606

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

Pattern: metacluster_1/pattern_11

Significance: 0.029937799999999997

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

Pattern: metacluster_0/pattern_15

Significance: 0.0194509

/

Pattern: metacluster_0/pattern_17

Significance: 0.0204259

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

Pattern: metacluster_0/pattern_14

Significance: 0.053231600000000004

/

Pattern: metacluster_0/pattern_17

Significance: 0.025865499999999996

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

Pattern: metacluster_1/pattern_8

Significance: 0.031020999999999996

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

Pattern: metacluster_0/pattern_8

Significance: 0.0027523000000000005

/

Pattern: metacluster_0/pattern_15

Significance: 0.05689109999999999

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

Pattern: metacluster_0/pattern_21

Significance: 0.053682400000000005

/

Pattern: metacluster_0/pattern_24

Significance: 0.038624

Absent
CD4+CD8intTCR+CD69+CD24+;MHC2defM;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.053829999999999996

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

Pattern: metacluster_0/pattern_13

Significance: 0.014282399999999999

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

Pattern: metacluster_0/pattern_20

Significance: 0.028584699999999998

/

Pattern: metacluster_0/pattern_21

Significance: 0.00677629

/

Pattern: metacluster_0/pattern_22

Significance: 0.022401499999999998

/

Pattern: metacluster_0/pattern_24

Significance: 0.0174623

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

Pattern: metacluster_1/pattern_9

Significance: 0.0550452

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

Pattern: metacluster_1/pattern_23

Significance: 0.0587678

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

Pattern: metacluster_1/pattern_8

Significance: 0.048833999999999995

/

Pattern: metacluster_1/pattern_14

Significance: 0.0553986

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_20

Significance: 0.0474733

Absent
ES;E14;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.0127479

Absent
SML_INTSTN;A;CL

Pattern: metacluster_0/pattern_3

Significance: 0.0554733

Absent
LRG_INTSTN;A;CL

Pattern: metacluster_0/pattern_1

Significance: 0.0136211

Absent
ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.011742299999999999

Absent
Muscle;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.0420103

Absent
Melanotrope;A;GEO

Pattern: metacluster_0/pattern_13

Significance: 0.05986469999999999

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

Pattern: metacluster_0/pattern_11

Significance: 0.057446000000000004

Absent
placenta;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.054093499999999996

Absent
pMeg;A;En

Pattern: metacluster_1/pattern_15

Significance: 0.0463009

Absent
eye-NRL_RTN;A;CL

Pattern: metacluster_0/pattern_8

Significance: 0.0281714

Absent
MegP;A;En

Pattern: metacluster_1/pattern_11

Significance: 0.051361300000000006

Absent
BRN;CRBLM;A;CL

Pattern: metacluster_0/pattern_11

Significance: 0.035442400000000006

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.040525099999999994

Absent
T_SPLND_blstCLTRD;CD4+;D;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.058122400000000005

Absent
apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_11

Significance: 0.0551668

Absent
416B_MP;CD34+;D;GEO

Pattern: metacluster_1/pattern_19

Significance: 5.96395e-05

Absent
CH12_QNTPLE;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.0520058

Absent
KDNY;P0;D;En

Pattern: metacluster_1/pattern_23

Significance: 0.0468558

Absent
mem_precrsrT_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0533773

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

Pattern: metacluster_1/pattern_15

Significance: 0.051754999999999995

Absent
ES;J1;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.05899069999999999

Absent
LVR;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.0418066

Absent
ES;129SV_Jae_C57BL6J;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.000251542

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_16

Significance: 0.050388199999999994

Absent
Heart;P0;D;En

Pattern: metacluster_1/pattern_19

Significance: 0.059919900000000005

Absent
RTN;A;GEO

Pattern: metacluster_0/pattern_10

Significance: 0.035430800000000005

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: 0.00022735

Absent
T_LCMV;CD8+;D33;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.04391180000000001

Absent
T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0574821

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

Pattern: metacluster_0/pattern_11

Significance: 0.025366299999999998

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

Pattern: metacluster_0/pattern_18

Significance: 0.0566153

Absent
cntrl_memT;TCR_SV40-I_CD8+;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.0371175

Absent
Unique Cell types only Homer finds Rarg: #2

Cell typeModiscoHomer
pCMP;A;CLAbsent

Pattern: motif11.motif

Significance: 0.059524400000000005

DC_BMD;A;CLAbsent

Pattern: motif13.motif

Significance: 0.029620999999999998