In [1]:
# Parameters
data_name = "Nfkb2"
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 11:23:03,298 [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)
Nfkb2: Motif: M09356_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Nfkb2: #42

Cell typeModiscoHomer
Th17;CD4+;A;CL

Pattern: metacluster_1/pattern_10

Significance: 1.94622e-05

Pattern: motif18.motif

Significance: 4.09577e-05

Spleen;8wks;D;En

Pattern: metacluster_1/pattern_13

Significance: 8.136810000000001e-08

Pattern: motif15.motif

Significance: 0.00186523

B1_B;A;CL

Pattern: metacluster_1/pattern_11

Significance: 8.223609999999999e-07

Pattern: motif20.motif

Significance: 0.00418041

aB_LPS;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.00017994200000000002

Pattern: motif15.motif

Significance: 0.021300799999999998

aB_LPS+IL21;A;CL

Pattern: metacluster_1/pattern_11

Significance: 7.12459e-05

Pattern: motif16.motif

Significance: 0.00897191

aB_LSP+a_d_dextran;A;CL

Pattern: metacluster_0/pattern_12

Significance: 7.71546e-06

Pattern: motif17.motif

Significance: 0.00397416

MCRPHG_BMD.LPD_Stmltd;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.000467279

Pattern: motif11.motif

Significance: 0.00417676

DC_LPS;6h;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 5.0892400000000005e-08

Pattern: motif7.motif

Significance: 0.00249861

DC_LPS;2h;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 1.47525e-08

Pattern: motif5.motif

Significance: 0.00368634

CH12.LX;D;En

Pattern: metacluster_1/pattern_2

Significance: 9.138770000000001e-09

Pattern: motif4.motif

Significance: 0.000242613

Tfh;A;CL

Pattern: metacluster_1/pattern_14

Significance: 2.69747e-06

Pattern: motif18.motif

Significance: 0.00975195

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

Pattern: metacluster_1/pattern_7

Significance: 4.38494e-07

Pattern: motif12.motif

Significance: 0.0178798

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

Pattern: metacluster_1/pattern_6

Significance: 8.361579999999999e-05

Pattern: motif14.motif

Significance: 0.00130088

DC_BMD;A;CL

Pattern: metacluster_1/pattern_5

Significance: 3.6362199999999997e-06

Pattern: motif5.motif

Significance: 0.00161241

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: 0.000585612

DC_LPS;4h;A;En

Pattern: metacluster_1/pattern_4

Significance: 4.2588500000000003e-07

Pattern: motif5.motif

Significance: 0.00402667

DC;A;En

Pattern: metacluster_1/pattern_6

Significance: 8.252249999999999e-07

Pattern: motif6.motif

Significance: 0.00626513

aB;CD180;A;CL

Pattern: metacluster_1/pattern_9

Significance: 4.53349e-05

Pattern: motif16.motif

Significance: 0.000218152

gamma_delta_TCR_MCR;A;CL

Pattern: metacluster_1/pattern_10

Significance: 3.71748e-08

Pattern: motif12.motif

Significance: 0.00044341199999999996

apCD4Eff;D;GEO

Pattern: metacluster_1/pattern_14

Significance: 3.35488e-05

Pattern: motif15.motif

Significance: 0.00445137

ILC2precrsr;A;CL

Pattern: metacluster_1/pattern_13

Significance: 2.7581900000000003e-06

Pattern: motif28.motif

Significance: 0.00309821

NCR+ILC3;A;CL

Pattern: metacluster_1/pattern_10

Significance: 7.58122e-05

Pattern: motif12.motif

Significance: 0.00034559699999999995

ILC2_Nippo;A;CL

Pattern: metacluster_1/pattern_6

Significance: 3.929930000000001e-06

Pattern: motif11.motif

Significance: 2.43708e-05

NCR+ILC3+IL23;A;CL

Pattern: metacluster_1/pattern_12

Significance: 6.347669999999999e-06

Pattern: motif23.motif

Significance: 0.00540949

ILC2;A;CL

Pattern: metacluster_1/pattern_15

Significance: 1.69058e-05

Pattern: motif16.motif

Significance: 0.00102368

Th2_nippo;A;CL

Pattern: metacluster_1/pattern_13

Significance: 6.93127e-06

Pattern: motif17.motif

Significance: 0.0005070130000000001

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: 8.08808e-05

Pattern: motif10.motif

Significance: 0.00120369

CH12_QNTPLE;A;CL

Pattern: metacluster_1/pattern_3

Significance: 4.15137e-07

Pattern: motif6.motif

Significance: 7.1915e-05

wCH12;A;CL

Pattern: metacluster_1/pattern_6

Significance: 2.75389e-07

Pattern: motif9.motif

Significance: 0.000289138

CH12;med14;A;CL

Pattern: metacluster_1/pattern_5

Significance: 5.670940000000001e-10

Pattern: motif10.motif

Significance: 0.00575366

wCH12_drug;A;CL

Pattern: metacluster_1/pattern_4

Significance: 3.78149e-09

Pattern: motif7.motif

Significance: 0.00023418400000000002

ILC2+IL33+IL25;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.000321742

Pattern: motif12.motif

Significance: 0.00014591799999999998

ILC1;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 8.66206e-05

Pattern: motif15.motif

Significance: 9.08556e-05

ILC2;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.000191008

Pattern: motif13.motif

Significance: 0.00121174

ILC3;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 0.000337966

Pattern: motif11.motif

Significance: 0.00144005

ILC1_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 2.30157e-05

Pattern: motif19.motif

Significance: 0.00658377

ILC2_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_10

Significance: 4.04738e-05

Pattern: motif16.motif

Significance: 0.024428599999999998

ILC3_AbxGRMFree;A;GEO

Pattern: metacluster_1/pattern_4

Significance: 2.3437200000000002e-06

Pattern: motif7.motif

Significance: 0.0243363

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

Pattern: metacluster_1/pattern_7

Significance: 2.9469899999999997e-05

Pattern: motif14.motif

Significance: 0.0037768

T_LCMV;CD8+;D33;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.000130773

Pattern: motif14.motif

Significance: 0.000658707

T_LCMV;CD8+;D35;A;GEO

Pattern: metacluster_1/pattern_12

Significance: 0.00014535200000000001

Pattern: motif16.motif

Significance: 0.00302928

Unique Cell types only TF-MoDISco finds Nfkb2: #58

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

Pattern: metacluster_1/pattern_16

Significance: 3.73889e-07

Absent
memT;CD4+;A;CL

Pattern: metacluster_1/pattern_14

Significance: 7.02337e-05

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

Pattern: metacluster_0/pattern_14

Significance: 3.56584e-09

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: 1.47549e-08

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

Pattern: metacluster_0/pattern_15

Significance: 1.40113e-07

Absent
immatureB;A;CL

Pattern: metacluster_1/pattern_12

Significance: 1.68878e-05

Absent
matureB;A;CL

Pattern: metacluster_0/pattern_10

Significance: 1.73304e-05

Absent
MZ_B;A;CL

Pattern: metacluster_1/pattern_7

Significance: 1.1693800000000001e-05

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

Pattern: metacluster_1/pattern_15

Significance: 3.20805e-08

Absent
GC_B;A;CL

Pattern: metacluster_1/pattern_21

Significance: 0.00024417

Absent
plasmaB;A;CL

Pattern: metacluster_1/pattern_28

Significance: 0.00130381

Absent
iNKT;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 1.5562e-05

Absent
aB_LPS+IL4;A;CL

Pattern: metacluster_1/pattern_13

Significance: 2.8756e-07

Absent
aB;A;GEO

Pattern: metacluster_1/pattern_8

Significance: 0.000188402

Absent
prePLSM_B;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 1.50874e-05

Absent
aB_CD40+IL4;A;CL

Pattern: metacluster_1/pattern_12

Significance: 0.000203584

Absent
B_SPLND;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 8.240299999999999e-05

Absent
3134_mammaryADNCRCNM;D;En

Pattern: metacluster_0/pattern_24

Significance: 0.0013265999999999998

Absent
NTRPHL;A;CL

Pattern: metacluster_1/pattern_16

Significance: 8.21883e-06

Absent
Tfh_LCMV;A;CL

Pattern: metacluster_1/pattern_15

Significance: 1.77795e-05

Absent
3T3-L1;D;En

Pattern: metacluster_1/pattern_18

Significance: 0.00032827400000000004

/

Pattern: metacluster_1/pattern_23

Significance: 0.00369147

Absent
aNonTfh;A;CL

Pattern: metacluster_1/pattern_13

Significance: 0.000266747

Absent
aNonTfh_mut;A;CL

Pattern: metacluster_1/pattern_14

Significance: 2.82916e-07

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

Pattern: metacluster_1/pattern_10

Significance: 1.91745e-05

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

Pattern: metacluster_1/pattern_15

Significance: 0.00041076400000000004

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: 0.000222993

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: 7.26064e-05

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

Pattern: metacluster_1/pattern_13

Significance: 9.98084e-05

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: 6.4585e-05

Absent
SKN_EPTHL;A;GEO

Pattern: metacluster_0/pattern_20

Significance: 0.00020088099999999998

Absent
Mammary;A;CL

Pattern: metacluster_0/pattern_18

Significance: 4.92037e-05

Absent
Mammary_BptfKO;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 3.78686e-05

Absent
restingB;A;CL

Pattern: metacluster_1/pattern_15

Significance: 2.35792e-07

Absent
gamma_delta_TCR;A;CL

Pattern: metacluster_1/pattern_12

Significance: 2.89152e-06

Absent
T_SPLND_blstCLTRD;CD4+;D;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.000381653

Absent
gamma_delta_TCR_M-S-;A;CL

Pattern: metacluster_0/pattern_16

Significance: 0.00047432800000000004

Absent
NK;IL2+IL12+;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.00031258

Absent
naiveT_SPLND;CD4+;D;GEO

Pattern: metacluster_1/pattern_13

Significance: 6.922189999999999e-08

Absent
ILC1;A;CL

Pattern: metacluster_1/pattern_13

Significance: 3.23687e-08

Absent
FBRBLST;8wks;D;En

Pattern: metacluster_1/pattern_23

Significance: 4.4062799999999994e-05

Absent
mem_precrsrT_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.000523061

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

Pattern: metacluster_1/pattern_16

Significance: 7.72173e-05

Absent
Mammary_GLND;A;GEO

Pattern: metacluster_1/pattern_19

Significance: 0.000147867

Absent
naiveT;CD8+;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.00024349200000000002

Absent
T_LCMV;CD8+;D8;A;GEO

Pattern: metacluster_1/pattern_13

Significance: 0.000160105

Absent
TEff_SPLND;CD8+;A;GEO

Pattern: metacluster_1/pattern_15

Significance: 1.24371e-05

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

/

Pattern: metacluster_1/pattern_18

Significance: 0.0372966

Absent
naiveT;trnsgncTCR_SV40-I_CD8;A;GEO

Pattern: metacluster_0/pattern_18

Significance: 0.000648294

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

Pattern: metacluster_1/pattern_17

Significance: 2.74418e-05

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

Pattern: metacluster_1/pattern_16

Significance: 1.0868199999999999e-05

/

Pattern: metacluster_1/pattern_20

Significance: 0.0558644

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

Pattern: metacluster_1/pattern_15

Significance: 1.94992e-05

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

Pattern: metacluster_1/pattern_17

Significance: 2.3907e-07

Absent
Unique Cell types only Homer finds Nfkb2: #7

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

Pattern: motif21.motif

Significance: 0.00525492

Treg;CD4+_CD25+;D;GEOAbsent

Pattern: motif19.motif

Significance: 0.000238026

apTreg;8wk;D;EnAbsent

Pattern: motif18.motif

Significance: 0.00171879

apTreg;D;GEOAbsent

Pattern: motif18.motif

Significance: 0.00037016

immatureB_SPLND;CD43-_CD11b-;D;GEOAbsent

Pattern: motif21.motif

Significance: 0.000112727

immatureB_SPLND;CD43-_CD11b-;D;EnAbsent

Pattern: motif17.motif

Significance: 0.00243385

Tfh_mut;A;CLAbsent

Pattern: motif17.motif

Significance: 0.000600732