In [1]:
# Parameters
data_name = "Relb"
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 11:31:12,755 [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)
Relb: Motif: M09352_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Relb: #43

Cell typeModiscoHomer
Th17;CD4+;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.000272438

Pattern: motif18.motif

Significance: 4.09577e-05

Spleen;8wks;D;En

Pattern: metacluster_1/pattern_13

Significance: 8.36781e-05

Pattern: motif15.motif

Significance: 0.000478346

B1_B;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.000536032

Pattern: motif20.motif

Significance: 0.0107708

aB_LPS;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.00017994200000000002

Pattern: motif15.motif

Significance: 0.0496454

aB_LPS+IL21;A;CL

Pattern: metacluster_1/pattern_11

Significance: 7.12459e-05

Pattern: motif16.motif

Significance: 0.038181400000000004

aB_LSP+a_d_dextran;A;CL

Pattern: metacluster_0/pattern_12

Significance: 8.72863e-06

Pattern: motif17.motif

Significance: 0.00635038

MCRPHG_BMD.LPD_Stmltd;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.000315967

Pattern: motif11.motif

Significance: 0.00417676

DC_LPS;6h;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 2.02798e-05

Pattern: motif7.motif

Significance: 0.00139673

DC_LPS;2h;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 1.42161e-05

Pattern: motif5.motif

Significance: 0.0022878

CH12.LX;D;En

Pattern: metacluster_1/pattern_2

Significance: 6.2976e-05

Pattern: motif4.motif

Significance: 0.0007938060000000001

3T3-L1;D;En

Pattern: metacluster_1/pattern_18

Significance: 0.000156161

/

Pattern: metacluster_1/pattern_23

Significance: 0.00741878

Pattern: motif4.motif

Significance: 0.0495036

Tfh;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.000530716

Pattern: motif18.motif

Significance: 0.0145077

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

Pattern: metacluster_1/pattern_7

Significance: 2.14432e-05

Pattern: motif12.motif

Significance: 0.038449199999999996

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

Pattern: metacluster_1/pattern_6

Significance: 0.0006472030000000001

Pattern: motif14.motif

Significance: 0.00283328

DC_BMD;A;CL

Pattern: metacluster_1/pattern_5

Significance: 2.4288999999999997e-06

Pattern: motif5.motif

Significance: 0.0009561460000000001

ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_1

Significance: 0.0001705

/

Pattern: metacluster_1/pattern_7

Significance: 0.024428599999999998

Pattern: motif2.motif

Significance: 0.0021971

DC_LPS;4h;A;En

Pattern: metacluster_1/pattern_4

Significance: 1.44481e-05

Pattern: motif5.motif

Significance: 0.0025475000000000003

DC;A;En

Pattern: metacluster_1/pattern_6

Significance: 3.7537300000000006e-06

Pattern: motif6.motif

Significance: 0.00564003

aB;CD180;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.00128093

Pattern: motif16.motif

Significance: 0.00047268900000000004

gamma_delta_TCR_MCR;A;CL

Pattern: metacluster_1/pattern_10

Significance: 3.21736e-06

Pattern: motif12.motif

Significance: 0.0013792

apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00107875

Pattern: motif15.motif

Significance: 0.00312846

ILC2precrsr;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.00030370799999999997

Pattern: motif28.motif

Significance: 0.00346558

NCR+ILC3;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.000328783

Pattern: motif12.motif

Significance: 0.00242047

ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_6

Significance: 4.66723e-07

Pattern: motif11.motif

Significance: 3.37012e-05

NCR+ILC3+IL23;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.000153282

Pattern: motif23.motif

Significance: 0.028200700000000002

ILC2;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.00035790400000000003

Pattern: motif16.motif

Significance: 0.000335616

Th2_nippo;A;CL

Pattern: metacluster_1/pattern_13

Significance: 8.330780000000001e-05

Pattern: motif17.motif

Significance: 7.06943e-05

aB_LPS+IL4_24h;A;CL

Pattern: metacluster_0/pattern_13

Significance: 0.0007710519999999999

Pattern: motif21.motif

Significance: 0.013338599999999999

aB_LPS+IL4+Oligomycin_24h;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.00100164

Pattern: motif10.motif

Significance: 0.00693594

CH12_QNTPLE;A;CL

Pattern: metacluster_1/pattern_3

Significance: 9.527280000000001e-05

Pattern: motif6.motif

Significance: 0.000668988

wCH12;A;CL

Pattern: metacluster_1/pattern_6

Significance: 0.00026245099999999997

Pattern: motif9.motif

Significance: 0.00314288

CH12;med14;A;CL

Pattern: metacluster_1/pattern_5

Significance: 3.31886e-06

Pattern: motif10.motif

Significance: 0.00328182

wCH12_drug;A;CL

Pattern: metacluster_1/pattern_4

Significance: 5.07645e-05

Pattern: motif7.motif

Significance: 0.000393901

ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.000626961

Pattern: motif12.motif

Significance: 9.816200000000001e-05

ILC1;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.000588567

Pattern: motif15.motif

Significance: 0.000848737

ILC2;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.00115903

Pattern: motif13.motif

Significance: 0.00160521

ILC3;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.000780599

Pattern: motif11.motif

Significance: 0.000888817

ILC1_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.000299312

Pattern: motif19.motif

Significance: 0.0319743

ILC2_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.000416664

Pattern: motif16.motif

Significance: 0.0328672

ILC3_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 2.4885200000000002e-08

Pattern: motif7.motif

Significance: 0.0517216

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

Pattern: metacluster_1/pattern_7

Significance: 0.00057096

Pattern: motif14.motif

Significance: 0.00704876

T_LCMV;CD8+;D33;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.000795366

Pattern: motif14.motif

Significance: 0.000704635

T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.00102554

Pattern: motif16.motif

Significance: 0.0008387669999999999

Unique Cell types only TF-MoDISco finds Relb: #57

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

Pattern: metacluster_1/pattern_16

Significance: 4.30488e-05

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_14

Significance: 0.00113261

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

Pattern: metacluster_0/pattern_14

Significance: 2.3255e-05

Absent
NK_SPLND;A;CL

Pattern: metacluster_0/pattern_18

Significance: 0.000890627

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

Pattern: metacluster_1/pattern_14

Significance: 0.000204356

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

Pattern: metacluster_0/pattern_15

Significance: 5.10924e-06

Absent
immatureB;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.00139441

Absent
matureB;A;CL

Pattern: metacluster_0/pattern_10

Significance: 0.00116898

Absent
MZ_B;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.00152595

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

Pattern: metacluster_1/pattern_15

Significance: 1.19682e-05

Absent
GC_B;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.00023234599999999997

Absent
plasmaB;A;CL

Pattern: metacluster_1/pattern_28

Significance: 0.00130381

Absent
iNKT;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.00112357

Absent
aB_LPS+IL4;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.000162907

Absent
aB;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.00199627

Absent
prePLSM_B;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.000597911

Absent
aB_CD40+IL4;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.000636936

Absent
B_SPLND;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0027737

Absent
3134_mammaryADNCRCNM;D;En

Pattern: metacluster_0/pattern_24

Significance: 0.000141424

Absent
NTRPHL;A;CL

Pattern: metacluster_1/pattern_16

Significance: 3.13794e-05

Absent
Tfh_LCMV;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.0007989560000000001

Absent
aNonTfh;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.000266747

Absent
aNonTfh_mut;A;CL

Pattern: metacluster_1/pattern_14

Significance: 5.42907e-05

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

Pattern: metacluster_1/pattern_10

Significance: 0.000283362

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

Pattern: metacluster_1/pattern_15

Significance: 0.00120374

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

Pattern: metacluster_1/pattern_16

Significance: 0.00231302

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

Pattern: metacluster_1/pattern_15

Significance: 0.00134427

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

Pattern: metacluster_1/pattern_18

Significance: 0.00178906

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

Pattern: metacluster_1/pattern_16

Significance: 0.00276198

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

Pattern: metacluster_1/pattern_13

Significance: 0.00673376

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

Pattern: metacluster_1/pattern_18

Significance: 0.00486835

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

Pattern: metacluster_1/pattern_14

Significance: 0.00509326

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

Pattern: metacluster_1/pattern_13

Significance: 0.0031480999999999996

Absent
SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_20

Significance: 6.728390000000001e-05

Absent
Mammary;A;CL

Pattern: metacluster_0/pattern_18

Significance: 4.92037e-05

Absent
Mammary_BptfKO;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 1.4913800000000001e-05

Absent
restingB;A;CL

Pattern: metacluster_1/pattern_15

Significance: 6.0168900000000006e-05

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_12

Significance: 6.70312e-05

Absent
T_SPLND_blstCLTRD;CD4+;D;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.0009251039999999999

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.00339861

Absent
NK;IL2+IL12+;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.00372492

Absent
naiveT_SPLND;CD4+;D;GEO

Pattern: metacluster_1/pattern_13

Significance: 4.5853500000000004e-05

Absent
ILC1;A;CL

Pattern: metacluster_1/pattern_13

Significance: 3.41037e-05

Absent
FBRBLST;8wks;D;En

Pattern: metacluster_1/pattern_23

Significance: 0.000207309

Absent
mem_precrsrT_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00243753

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

Pattern: metacluster_1/pattern_16

Significance: 0.00703892

Absent
Mammary_GLND;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.000307713

Absent
naiveT;CD8+;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.003963599999999999

Absent
T_LCMV;CD8+;D8;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.0007741089999999999

Absent
TEff_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.000965913

Absent
TExh_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.000654092

Absent
TSLEC_SPLND;CD8+A;GEO

Pattern: metacluster_1/pattern_17

Significance: 0.00010188200000000001

Absent
naiveT;trnsgncTCR_SV40-I_CD8;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 0.00451046

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

Pattern: metacluster_1/pattern_17

Significance: 0.000485294

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

Pattern: metacluster_1/pattern_16

Significance: 0.000790664

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

Pattern: metacluster_1/pattern_15

Significance: 0.00129748

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

Pattern: metacluster_1/pattern_17

Significance: 0.00017334299999999998

Absent
Unique Cell types only Homer finds Relb: #7

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

Pattern: motif21.motif

Significance: 0.0267916

Treg;CD4+_CD25+;D;GEOAbsent

Pattern: motif19.motif

Significance: 0.000708784

apTreg;8wk;D;EnAbsent

Pattern: motif18.motif

Significance: 0.0120371

apTreg;D;GEOAbsent

Pattern: motif18.motif

Significance: 0.00178309

immatureB_SPLND;CD43-_CD11b-;D;GEOAbsent

Pattern: motif21.motif

Significance: 0.00370558

immatureB_SPLND;CD43-_CD11b-;D;EnAbsent

Pattern: motif17.motif

Significance: 0.00243385

Tfh_mut;A;CLAbsent

Pattern: motif17.motif

Significance: 0.000412734