In [1]:
# Parameters
data_name = "Tcf3"
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 11:42:34,050 [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)
Tcf3: Motif: M09465_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Tcf3: #33

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

Pattern: metacluster_1/pattern_1

Significance: 0.05664119999999999

Pattern: motif5.motif

Significance: 0.022903

wES;limb;E11.5;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.020820500000000002

/

Pattern: metacluster_0/pattern_16

Significance: 0.000162455

Pattern: motif12.motif

Significance: 0.055476599999999994

wES;Fr_lmb;E11.5;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0327215

Pattern: motif6.motif

Significance: 0.057799300000000005

wES;FaceP;E14.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.0463213

Pattern: motif5.motif

Significance: 0.0282635

proB;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.00191383

Pattern: motif15.motif

Significance: 0.0537778

preB;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0030674

Pattern: motif12.motif

Significance: 0.05362130000000001

wES;FaceP;E11.5;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.0588384

Pattern: motif7.motif

Significance: 0.0532775

wES;NRL_Tube;E11.5;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0321294

Pattern: motif15.motif

Significance: 0.0544508

SKLTL_Muscle;8wks;D;En

Pattern: metacluster_1/pattern_12

Significance: 0.03340119999999999

Pattern: motif10.motif

Significance: 0.0498593

prePLSM_B;A;GEO

Pattern: metacluster_1/pattern_20

Significance: 0.049622

/

Pattern: metacluster_1/pattern_21

Significance: 0.050569699999999995

Pattern: motif22.motif

Significance: 0.017396099999999998

plasmaB;A;CL

Pattern: metacluster_1/pattern_5

Significance: 7.81281e-05

Pattern: motif9.motif

Significance: 0.028992700000000003

preB_BMD;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.0006584439999999999

Pattern: motif9.motif

Significance: 0.0116751

B;B220_CD43;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.00166669

/

Pattern: metacluster_1/pattern_18

Significance: 0.056677899999999996

Pattern: motif11.motif

Significance: 0.0201057

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

Pattern: metacluster_1/pattern_5

Significance: 0.00113839

/

Pattern: metacluster_1/pattern_17

Significance: 7.22877e-05

Pattern: motif18.motif

Significance: 0.0420829

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

Pattern: metacluster_1/pattern_4

Significance: 0.00157666

/

Pattern: metacluster_1/pattern_15

Significance: 5.11546e-05

/

Pattern: metacluster_1/pattern_16

Significance: 0.00388673

Pattern: motif13.motif

Significance: 0.0228608

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

Pattern: metacluster_1/pattern_11

Significance: 3.96961e-05

Pattern: motif17.motif

Significance: 0.0166305

NPC;F129;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.042984100000000004

Pattern: motif10.motif

Significance: 0.05376469999999999

NPC;G4;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.011795100000000001

Pattern: motif9.motif

Significance: 0.0214562

NPC;Ch13;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.027675599999999998

/

Pattern: metacluster_1/pattern_17

Significance: 0.0260098

Pattern: motif13.motif

Significance: 0.0421769

NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.00882758

Pattern: motif11.motif

Significance: 0.0505326

DP;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.00194926

Pattern: motif17.motif

Significance: 0.033786699999999996

DP3b;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.00365116

/

Pattern: metacluster_1/pattern_8

Significance: 0.000255218

Pattern: motif7.motif

Significance: 0.0585529

ISP;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.00490345

/

Pattern: metacluster_1/pattern_15

Significance: 0.000127001

Pattern: motif14.motif

Significance: 0.019340200000000002

/

Pattern: motif19.motif

Significance: 0.0382992

ES;E14;A;CL

Pattern: metacluster_1/pattern_10

Significance: 7.744289999999999e-06

Pattern: motif7.motif

Significance: 0.0493183

Muscle;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.0587058

Pattern: motif19.motif

Significance: 0.0319482

Heart;D;En

Pattern: metacluster_0/pattern_8

Significance: 0.03649430000000001

Pattern: motif13.motif

Significance: 0.00718985

KDNY;P0;D;En

Pattern: metacluster_1/pattern_9

Significance: 0.042651999999999995

Pattern: motif15.motif

Significance: 0.00511093

LNG;P0;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.00368821

Pattern: motif18.motif

Significance: 0.0406751

wES;LNG;E14.5;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.00211406

Pattern: motif13.motif

Significance: 0.048207599999999996

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.0532696

Pattern: motif2.motif

Significance: 0.0304066

RTN;D1;D;En

Pattern: metacluster_0/pattern_4

Significance: 0.0360324

Pattern: motif16.motif

Significance: 0.013178

wES;MSDRM;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.0427984

Pattern: motif4.motif

Significance: 0.0236953

wES;Md_BRN;E11.5;D;En

Pattern: metacluster_0/pattern_4

Significance: 0.0488336

Pattern: motif19.motif

Significance: 0.0333715

Unique Cell types only TF-MoDISco finds Tcf3: #49

Cell typeModiscoHomer
naiveCD8;A;CL

Pattern: metacluster_0/pattern_13

Significance: 9.01052e-05

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.00116899

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

Pattern: metacluster_0/pattern_15

Significance: 8.37316e-05

/

Pattern: metacluster_0/pattern_22

Significance: 0.036139

Absent
B1_B;A;CL

Pattern: metacluster_1/pattern_18

Significance: 0.04648819999999999

/

Pattern: metacluster_1/pattern_19

Significance: 0.0383071

Absent
Tfh_LCMV;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.00779234

/

Pattern: metacluster_1/pattern_18

Significance: 0.000305744

Absent
aNonTfh;A;CL

Pattern: metacluster_1/pattern_18

Significance: 0.00012270100000000002

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

Pattern: metacluster_0/pattern_17

Significance: 0.049642900000000004

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

Pattern: metacluster_0/pattern_10

Significance: 0.00635478

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

Pattern: metacluster_0/pattern_24

Significance: 0.050372

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

Pattern: metacluster_1/pattern_21

Significance: 0.00847325

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

Pattern: metacluster_0/pattern_15

Significance: 0.0186067

Absent
wES;5th_Rhmbmr;E8.5;A;GEO

Pattern: metacluster_0/pattern_12

Significance: 0.010262

/

Pattern: metacluster_0/pattern_22

Significance: 0.0470145

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

Pattern: metacluster_0/pattern_5

Significance: 0.0452741

/

Pattern: metacluster_0/pattern_17

Significance: 0.039649000000000004

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

Pattern: metacluster_1/pattern_13

Significance: 0.00119393

/

Pattern: metacluster_1/pattern_14

Significance: 0.0212822

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

Pattern: metacluster_1/pattern_12

Significance: 2.11064e-05

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

Pattern: metacluster_0/pattern_9

Significance: 0.027829900000000005

/

Pattern: metacluster_0/pattern_25

Significance: 0.0250052

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

Pattern: metacluster_1/pattern_5

Significance: 0.021013900000000002

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

Pattern: metacluster_1/pattern_12

Significance: 0.000140121

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

Pattern: metacluster_1/pattern_15

Significance: 0.000421835

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

Pattern: metacluster_1/pattern_10

Significance: 0.000115503

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

Pattern: metacluster_1/pattern_16

Significance: 0.000107799

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

Pattern: metacluster_0/pattern_10

Significance: 0.00973363

/

Pattern: metacluster_0/pattern_24

Significance: 0.0555009

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

Pattern: metacluster_0/pattern_9

Significance: 0.016013200000000002

/

Pattern: metacluster_0/pattern_21

Significance: 0.0467303

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

Pattern: metacluster_0/pattern_8

Significance: 0.0236675

Absent
BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_22

Significance: 0.000918795

/

Pattern: metacluster_0/pattern_23

Significance: 0.0497485

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

Pattern: metacluster_0/pattern_5

Significance: 0.0553877

/

Pattern: metacluster_0/pattern_18

Significance: 0.00119813

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_3

Significance: 0.05221900000000001

Absent
iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_0

Significance: 0.041630400000000005

Absent
G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_0

Significance: 0.05611939999999999

Absent
Corticotrope;A;GEO

Pattern: metacluster_0/pattern_17

Significance: 0.0129405

Absent
LNG;A;CL

Pattern: metacluster_1/pattern_20

Significance: 0.0177327

Absent
Melanotrope;A;GEO

Pattern: metacluster_0/pattern_8

Significance: 0.017800200000000002

Absent
BRN;OLFTRY_BLB;A;CL

Pattern: metacluster_0/pattern_13

Significance: 0.0117607

Absent
LNG;8wks;D;GEO

Pattern: metacluster_0/pattern_21

Significance: 0.039289300000000006

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.00799944

Absent
apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.00010319

Absent
WHL_BRN;8wks;D;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.025985400000000006

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

Pattern: metacluster_0/pattern_2

Significance: 0.026354200000000005

Absent
wCH12_drug;A;CL

Pattern: metacluster_1/pattern_17

Significance: 0.00759331

Absent
LNG;8wks;D;En

Pattern: metacluster_0/pattern_17

Significance: 0.0104587

Absent
Heart;8wks;D;En

Pattern: metacluster_0/pattern_11

Significance: 0.0378076

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

Pattern: metacluster_0/pattern_3

Significance: 0.042715699999999995

Absent
Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_15

Significance: 0.0214356

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0504011

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

Pattern: metacluster_0/pattern_4

Significance: 0.0130637

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

Pattern: metacluster_0/pattern_7

Significance: 0.0371309

Absent
wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_4

Significance: 0.041959199999999995

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

Pattern: metacluster_1/pattern_5

Significance: 0.0373907

Absent
WHL_BRN;8wks;D;En

Pattern: metacluster_1/pattern_11

Significance: 0.030849500000000002

Absent
Unique Cell types only Homer finds Tcf3: #2

Cell typeModiscoHomer
DP3a;A;CLAbsent

Pattern: motif12.motif

Significance: 0.0307468

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

Pattern: motif14.motif

Significance: 0.0348726