In [1]:
# Parameters
data_name = "Rel"
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 11:30:58,873 [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)
Rel: Motif: M09353_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Rel: #31

Cell typeModiscoHomer
Th17;CD4+;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.00620115

Pattern: motif18.motif

Significance: 0.0130077

Spleen;8wks;D;En

Pattern: metacluster_1/pattern_13

Significance: 0.0165203

Pattern: motif15.motif

Significance: 0.0313072

B1_B;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.0323655

Pattern: motif20.motif

Significance: 0.008614499999999999

MCRPHG_BMD.LPD_Stmltd;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.00126441

Pattern: motif11.motif

Significance: 0.000423256

aB_LSP+a_d_dextran;A;CL

Pattern: metacluster_0/pattern_12

Significance: 0.00488681

Pattern: motif17.motif

Significance: 0.0439426

CH12.LX;D;En

Pattern: metacluster_1/pattern_2

Significance: 0.0248958

Pattern: motif4.motif

Significance: 0.00843098

DC_LPS;6h;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.00807365

Pattern: motif7.motif

Significance: 0.00661893

DC_LPS;2h;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.00838843

Pattern: motif5.motif

Significance: 0.000256987

3T3-L1;D;En

Pattern: metacluster_1/pattern_18

Significance: 0.00152905

Pattern: motif4.motif

Significance: 0.0495036

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

Pattern: metacluster_1/pattern_6

Significance: 0.00605564

Pattern: motif14.motif

Significance: 0.0158522

DC_BMD;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.0116543

Pattern: motif5.motif

Significance: 0.00888116

Mammary_BptfKO;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 0.00437189

Pattern: motif8.motif

Significance: 0.0406296

DC_LPS;4h;A;En

Pattern: metacluster_1/pattern_4

Significance: 0.00474994

Pattern: motif5.motif

Significance: 0.00020852400000000002

DC;A;En

Pattern: metacluster_1/pattern_6

Significance: 0.00651108

Pattern: motif6.motif

Significance: 0.00057331

aB;CD180;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.0314835

Pattern: motif16.motif

Significance: 0.033355800000000005

apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00396571

Pattern: motif15.motif

Significance: 0.0336286

ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.00719826

Pattern: motif11.motif

Significance: 0.017124700000000003

ILC2;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.00510326

Pattern: motif16.motif

Significance: 0.00559799

Th2_nippo;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.00517457

Pattern: motif17.motif

Significance: 0.0312442

aB_LPS+IL4+Oligomycin_24h;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.014059799999999999

Pattern: motif10.motif

Significance: 0.00716552

wCH12;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.0198687

Pattern: motif9.motif

Significance: 0.00314288

CH12;med14;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.0221775

Pattern: motif10.motif

Significance: 0.013957299999999997

wCH12_drug;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0197622

Pattern: motif7.motif

Significance: 0.0174286

ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.00720204

Pattern: motif12.motif

Significance: 0.014780000000000001

ILC1;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.00395634

Pattern: motif15.motif

Significance: 0.05352080000000001

ILC2;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.00750563

Pattern: motif13.motif

Significance: 0.030769799999999996

ILC3;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.00497617

Pattern: motif11.motif

Significance: 0.00144005

abTreg;CD4+_CD25+;8wks;D;En

Pattern: metacluster_1/pattern_7

Significance: 0.0124053

Pattern: motif14.motif

Significance: 0.0203518

ILC3_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 0.00689711

Pattern: motif7.motif

Significance: 0.0243363

T_LCMV;CD8+;D33;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.00906618

Pattern: motif14.motif

Significance: 0.00733354

T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.00851254

Pattern: motif16.motif

Significance: 0.0436227

Unique Cell types only TF-MoDISco finds Rel: #64

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

Pattern: metacluster_1/pattern_16

Significance: 0.017605000000000003

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.0022154

Absent
T_MLD;TCR_SV40-I_CD8+;D60;A;GEO

Pattern: metacluster_0/pattern_14

Significance: 0.019415900000000003

Absent
NK_SPLND;A;CL

Pattern: metacluster_0/pattern_18

Significance: 0.012612700000000001

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

Pattern: metacluster_1/pattern_14

Significance: 0.0366699

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

Pattern: metacluster_0/pattern_15

Significance: 0.0101204

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

Pattern: metacluster_1/pattern_15

Significance: 0.0126075

Absent
matureB;A;CL

Pattern: metacluster_0/pattern_10

Significance: 0.051944000000000004

Absent
MZ_B;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.0322558

Absent
iNKT;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0155648

Absent
GC_B;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.00793018

Absent
aB;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.00344764

Absent
aB_LPS;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.00128815

Absent
aB_LPS+IL4;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.0415722

Absent
aB_LPS+IL21;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.00191068

Absent
prePLSM_B;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.0196542

Absent
aB_CD40+IL4;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.010528000000000001

Absent
3134_mammaryADNCRCNM;D;En

Pattern: metacluster_0/pattern_24

Significance: 0.00428735

Absent
NTRPHL;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.00550838

Absent
Tfh_LCMV;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.00497357

Absent
Tfh;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.0279224

Absent
aNonTfh;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.017763

Absent
aNonTfh_mut;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.0204134

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

Pattern: metacluster_1/pattern_10

Significance: 0.00701791

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

Pattern: metacluster_1/pattern_7

Significance: 0.00647809

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

Pattern: metacluster_1/pattern_15

Significance: 0.00654865

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

Pattern: metacluster_1/pattern_16

Significance: 0.051620000000000006

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

Pattern: metacluster_1/pattern_15

Significance: 0.0111651

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

Pattern: metacluster_1/pattern_18

Significance: 0.0324387

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

Pattern: metacluster_1/pattern_16

Significance: 0.00869417

Absent
CD4+CD8+TCR+CD69+CD24+;MHC2defM;A;C

Pattern: metacluster_1/pattern_13

Significance: 0.022702

Absent
CD4+CD8+TCR+CD69-CD24-;MHC2defM;A;CL

Pattern: metacluster_1/pattern_18

Significance: 0.020219499999999998

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

Pattern: metacluster_1/pattern_14

Significance: 0.00629576

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

Pattern: metacluster_1/pattern_13

Significance: 0.010717299999999999

Absent
SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_20

Significance: 0.00498305

Absent
ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_1

Significance: 0.011523

/

Pattern: metacluster_1/pattern_7

Significance: 0.00188148

Absent
restingB;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.0129531

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.00346603

Absent
gamma_delta_TCR_MCR;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.035961099999999996

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.00470931

Absent
NK;IL2+IL12+;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.00489537

Absent
ILC2precrsr;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.0190649

Absent
NCR+ILC3;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.00289712

Absent
T_SPLND_blstCLTRD;CD4+;D;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0187247

Absent
ILC1;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.015144

Absent
NCR+ILC3+IL23;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.00770176

Absent
naiveT_SPLND;CD4+;D;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0117315

Absent
aB_LPS+IL4_24h;A;CL

Pattern: metacluster_0/pattern_13

Significance: 0.0170565

Absent
CH12_QNTPLE;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.0128488

Absent
FBRBLST;8wks;D;En

Pattern: metacluster_1/pattern_23

Significance: 0.029181099999999998

Absent
mem_precrsrT_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0108582

Absent
NK_LVRD;CD19-CD3e-NKp46+DX+Trail-;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.045491699999999996

Absent
Mammary_GLND;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.00240653

Absent
ILC1_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.00361294

Absent
ILC2_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.00519954

Absent
naiveT;CD8+;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.00495671

Absent
T_LCMV;CD8+;D8;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.00976938

Absent
TEff_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.0106152

Absent
TExh_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.0126292

Absent
TSLEC_SPLND;CD8+A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.00923578

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

Pattern: metacluster_1/pattern_17

Significance: 0.00913882

Absent
T_MLD;TCR_SV40-I_CD8+;D5;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0096154

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

Pattern: metacluster_1/pattern_15

Significance: 0.015266899999999998

Absent
T_MLD;TCR_SV40-I_CD8+;D21;A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.00675708

Absent
Unique Cell types only Homer finds Rel: #5

Cell typeModiscoHomer
apThEff;CD4+;8wks;D;En.Absent

Pattern: motif21.motif

Significance: 0.0267916

Treg;CD4+_CD25+;D;GEOAbsent

Pattern: motif19.motif

Significance: 0.0392405

immatureB_SPLND;CD43-_CD11b-;D;GEOAbsent

Pattern: motif21.motif

Significance: 0.010101899999999999

immatureB_SPLND;CD43-_CD11b-;D;EnAbsent

Pattern: motif17.motif

Significance: 0.0443746

Tfh_mut;A;CLAbsent

Pattern: motif17.motif

Significance: 0.0119479