In [1]:
# Parameters
data_name = "Nfkb1"
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 11:23:01,575 [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)
Nfkb1: Motif: M09358_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Nfkb1: #46

Cell typeModiscoHomer
Th17;CD4+;A;CL

Pattern: metacluster_1/pattern_10

Significance: 1.31019e-05

Pattern: motif18.motif

Significance: 4.09577e-05

Spleen;8wks;D;En

Pattern: metacluster_1/pattern_13

Significance: 1.52792e-05

Pattern: motif15.motif

Significance: 0.000478346

B1_B;A;CL

Pattern: metacluster_1/pattern_11

Significance: 0.000122402

Pattern: motif20.motif

Significance: 0.00151058

aB_LPS;A;CL

Pattern: metacluster_1/pattern_13

Significance: 9.32012e-05

Pattern: motif15.motif

Significance: 0.021300799999999998

aB_LPS+IL21;A;CL

Pattern: metacluster_1/pattern_11

Significance: 1.63107e-05

Pattern: motif16.motif

Significance: 0.00230666

aB_LSP+a_d_dextran;A;CL

Pattern: metacluster_0/pattern_12

Significance: 1.24335e-06

Pattern: motif17.motif

Significance: 0.00397416

MCRPHG_BMD.LPD_Stmltd;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 2.38753e-05

Pattern: motif11.motif

Significance: 0.000217961

DC_LPS;6h;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 1.01248e-06

Pattern: motif7.motif

Significance: 1.76739e-06

DC_LPS;2h;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 1.18094e-06

Pattern: motif5.motif

Significance: 0.000256987

CH12.LX;D;En

Pattern: metacluster_1/pattern_2

Significance: 1.8891e-05

Pattern: motif4.motif

Significance: 1.02035e-05

3T3-L1;D;En

Pattern: metacluster_1/pattern_18

Significance: 7.31686e-06

/

Pattern: metacluster_1/pattern_23

Significance: 0.000239623

Pattern: motif4.motif

Significance: 0.0277942

Tfh;A;CL

Pattern: metacluster_1/pattern_14

Significance: 8.100119999999999e-05

Pattern: motif18.motif

Significance: 0.00975195

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

Pattern: metacluster_1/pattern_7

Significance: 4.76143e-07

Pattern: motif12.motif

Significance: 0.014602

SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_20

Significance: 4.41419e-06

Pattern: motif8.motif

Significance: 0.0314457

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

Pattern: metacluster_1/pattern_6

Significance: 7.02118e-05

Pattern: motif14.motif

Significance: 0.000341944

DC_BMD;A;CL

Pattern: metacluster_1/pattern_5

Significance: 1.67981e-05

Pattern: motif5.motif

Significance: 1.24719e-06

ThMS_MEC;Aire++;A;GEO

Pattern: metacluster_1/pattern_1

Significance: 0.000546505

/

Pattern: metacluster_1/pattern_7

Significance: 0.00649611

Pattern: motif2.motif

Significance: 0.0021971

Mammary_BptfKO;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 9.328260000000001e-09

Pattern: motif8.motif

Significance: 0.034128399999999996

DC_LPS;4h;A;En

Pattern: metacluster_1/pattern_4

Significance: 1.98397e-07

Pattern: motif5.motif

Significance: 0.00020852400000000002

DC;A;En

Pattern: metacluster_1/pattern_6

Significance: 1.5093e-07

Pattern: motif6.motif

Significance: 0.00057331

aB;CD180;A;CL

Pattern: metacluster_1/pattern_9

Significance: 0.00018047400000000002

Pattern: motif16.motif

Significance: 8.19549e-05

gamma_delta_TCR_MCR;A;CL

Pattern: metacluster_1/pattern_10

Significance: 1.1853900000000002e-05

Pattern: motif12.motif

Significance: 0.0008853089999999999

apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_14

Significance: 3.35488e-05

Pattern: motif15.motif

Significance: 0.00248026

ILC2precrsr;A;CL

Pattern: metacluster_1/pattern_13

Significance: 5.38546e-05

Pattern: motif28.motif

Significance: 0.00171803

NCR+ILC3;A;CL

Pattern: metacluster_1/pattern_10

Significance: 5.9645e-06

Pattern: motif12.motif

Significance: 9.80264e-05

ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_6

Significance: 3.84432e-08

Pattern: motif11.motif

Significance: 3.04988e-06

NCR+ILC3+IL23;A;CL

Pattern: metacluster_1/pattern_12

Significance: 7.766519999999999e-06

Pattern: motif23.motif

Significance: 0.00147782

ILC2;A;CL

Pattern: metacluster_1/pattern_15

Significance: 1.0998099999999999e-05

Pattern: motif16.motif

Significance: 0.000199334

Th2_nippo;A;CL

Pattern: metacluster_1/pattern_13

Significance: 8.50007e-07

Pattern: motif17.motif

Significance: 7.06943e-05

aB_LPS+IL4_24h;A;CL

Pattern: metacluster_0/pattern_13

Significance: 3.96681e-05

Pattern: motif21.motif

Significance: 0.011800299999999998

aB_LPS+IL4+Oligomycin_24h;A;CL

Pattern: metacluster_1/pattern_7

Significance: 8.528e-05

Pattern: motif10.motif

Significance: 0.0006896119999999999

CH12_QNTPLE;A;CL

Pattern: metacluster_1/pattern_3

Significance: 5.09777e-06

Pattern: motif6.motif

Significance: 4.47776e-05

wCH12;A;CL

Pattern: metacluster_1/pattern_6

Significance: 3.67606e-05

Pattern: motif9.motif

Significance: 0.000157318

CH12;med14;A;CL

Pattern: metacluster_1/pattern_5

Significance: 2.9686000000000003e-06

Pattern: motif10.motif

Significance: 0.00234323

wCH12_drug;A;CL

Pattern: metacluster_1/pattern_4

Significance: 1.1410699999999999e-05

Pattern: motif7.motif

Significance: 3.18642e-05

Mammary_GLND;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 4.75129e-06

Pattern: motif14.motif

Significance: 0.00455425

ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.000259326

Pattern: motif12.motif

Significance: 3.38729e-05

ILC1;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 3.06473e-05

Pattern: motif15.motif

Significance: 9.76732e-06

ILC2;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.000137422

Pattern: motif13.motif

Significance: 0.000290866

ILC3;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.000137086

Pattern: motif11.motif

Significance: 7.72326e-05

ILC1_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 8.538910000000001e-06

Pattern: motif19.motif

Significance: 0.00168223

ILC2_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 6.83607e-06

Pattern: motif16.motif

Significance: 0.024428599999999998

ILC3_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 2.1846200000000003e-08

Pattern: motif7.motif

Significance: 0.0137393

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

Pattern: metacluster_1/pattern_7

Significance: 4.6482299999999994e-05

Pattern: motif14.motif

Significance: 0.0013731

T_LCMV;CD8+;D33;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 9.47379e-05

Pattern: motif14.motif

Significance: 8.84633e-06

T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_12

Significance: 8.713030000000001e-05

Pattern: motif16.motif

Significance: 0.0008387669999999999

Unique Cell types only TF-MoDISco finds Nfkb1: #54

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

Pattern: metacluster_1/pattern_16

Significance: 1.83106e-05

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_14

Significance: 2.71769e-05

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

Pattern: metacluster_0/pattern_14

Significance: 9.755030000000001e-06

Absent
NK_SPLND;A;CL

Pattern: metacluster_0/pattern_18

Significance: 5.9791000000000004e-05

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

Pattern: metacluster_1/pattern_14

Significance: 7.14052e-05

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

Pattern: metacluster_0/pattern_15

Significance: 7.58833e-07

Absent
immatureB;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.000798048

Absent
matureB;A;CL

Pattern: metacluster_0/pattern_10

Significance: 0.000321497

Absent
MZ_B;A;CL

Pattern: metacluster_1/pattern_7

Significance: 0.000336156

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

Pattern: metacluster_1/pattern_15

Significance: 3.0001099999999997e-06

Absent
GC_B;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.00014942299999999998

Absent
plasmaB;A;CL

Pattern: metacluster_1/pattern_28

Significance: 0.00130381

Absent
iNKT;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.00020743

Absent
aB_LPS+IL4;A;CL

Pattern: metacluster_1/pattern_13

Significance: 5.8070600000000006e-05

Absent
aB;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.00016794

Absent
prePLSM_B;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 5.4851999999999996e-05

Absent
aB_CD40+IL4;A;CL

Pattern: metacluster_1/pattern_12

Significance: 1.25949e-05

Absent
B_SPLND;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.00123918

Absent
3134_mammaryADNCRCNM;D;En

Pattern: metacluster_0/pattern_24

Significance: 0.000141424

Absent
NTRPHL;A;CL

Pattern: metacluster_1/pattern_16

Significance: 6.846559999999999e-07

Absent
Tfh_LCMV;A;CL

Pattern: metacluster_1/pattern_15

Significance: 1.77795e-05

Absent
aNonTfh;A;CL

Pattern: metacluster_1/pattern_13

Significance: 7.3535e-05

Absent
aNonTfh_mut;A;CL

Pattern: metacluster_1/pattern_14

Significance: 1.3625599999999999e-05

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

Pattern: metacluster_1/pattern_10

Significance: 1.25468e-05

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

Pattern: metacluster_1/pattern_15

Significance: 0.00032943699999999997

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

Pattern: metacluster_1/pattern_16

Significance: 0.000519336

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

Pattern: metacluster_1/pattern_15

Significance: 0.00010062399999999999

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

Pattern: metacluster_1/pattern_18

Significance: 0.00105915

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

Pattern: metacluster_1/pattern_16

Significance: 0.00021202

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

Pattern: metacluster_1/pattern_13

Significance: 0.000872203

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

Pattern: metacluster_1/pattern_18

Significance: 0.00155367

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

Pattern: metacluster_1/pattern_14

Significance: 0.00024234700000000002

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

Pattern: metacluster_1/pattern_13

Significance: 0.00025747599999999997

Absent
Mammary;A;CL

Pattern: metacluster_0/pattern_18

Significance: 4.67299e-07

Absent
restingB;A;CL

Pattern: metacluster_1/pattern_15

Significance: 5.528830000000001e-06

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_12

Significance: 1.2443299999999999e-06

Absent
T_SPLND_blstCLTRD;CD4+;D;GEO

Pattern: metacluster_1/pattern_18

Significance: 7.3754e-05

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.000245065

Absent
NK;IL2+IL12+;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.00030378400000000003

Absent
naiveT_SPLND;CD4+;D;GEO

Pattern: metacluster_1/pattern_13

Significance: 2.18309e-06

Absent
ILC1;A;CL

Pattern: metacluster_1/pattern_13

Significance: 4.47714e-06

Absent
FBRBLST;8wks;D;En

Pattern: metacluster_1/pattern_23

Significance: 2.5213600000000002e-05

Absent
mem_precrsrT_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.0002544

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

Pattern: metacluster_1/pattern_16

Significance: 0.00145224

Absent
naiveT;CD8+;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.000142842

Absent
T_LCMV;CD8+;D8;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.000108567

Absent
TEff_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 7.13603e-05

Absent
TExh_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 0.000218625

Absent
TSLEC_SPLND;CD8+A;GEO

Pattern: metacluster_1/pattern_17

Significance: 2.5050500000000004e-05

Absent
naiveT;trnsgncTCR_SV40-I_CD8;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 0.00319285

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

Pattern: metacluster_1/pattern_17

Significance: 4.7766400000000004e-05

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

Pattern: metacluster_1/pattern_16

Significance: 7.51162e-05

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

Pattern: metacluster_1/pattern_15

Significance: 0.000198924

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

Pattern: metacluster_1/pattern_17

Significance: 1.3177000000000001e-05

Absent
Unique Cell types only Homer finds Nfkb1: #8

Cell typeModiscoHomer
NPC;mE6;A;GEOAbsent

Pattern: motif20.motif

Significance: 0.05460790000000001

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

Pattern: motif21.motif

Significance: 0.00650009

Treg;CD4+_CD25+;D;GEOAbsent

Pattern: motif19.motif

Significance: 2.653e-05

apTreg;8wk;D;EnAbsent

Pattern: motif18.motif

Significance: 0.0009283910000000001

apTreg;D;GEOAbsent

Pattern: motif18.motif

Significance: 8.70161e-05

immatureB_SPLND;CD43-_CD11b-;D;GEOAbsent

Pattern: motif21.motif

Significance: 0.000112727

immatureB_SPLND;CD43-_CD11b-;D;EnAbsent

Pattern: motif17.motif

Significance: 0.0006308780000000001

Tfh_mut;A;CLAbsent

Pattern: motif17.motif

Significance: 4.76315e-05