In [1]:
# Parameters
data_name = "Nkx1-2"
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 11:24:06,493 [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)
Nkx1-2: Motif: M00503_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Nkx1-2: #20

Cell typeModiscoHomer
wES;limb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00110983

Pattern: motif4.motif

Significance: 0.029560500000000003

wES;Hnd_lmb;E11.5;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.000244481

Pattern: motif3.motif

Significance: 0.0205166

wES;FaceP;E14.5;D;En

Pattern: metacluster_0/pattern_7

Significance: 0.0461937

Pattern: motif14.motif

Significance: 0.05582430000000001

wES;Hnd_BRN;E14.5;D;En

Pattern: metacluster_0/pattern_8

Significance: 0.00271377

Pattern: motif3.motif

Significance: 0.0232483

BCK_SKN;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00401665

Pattern: motif9.motif

Significance: 0.00694299

CRBL_GRNL_Precrsr;A;GEO

Pattern: metacluster_0/pattern_6

Significance: 0.00996393

Pattern: motif6.motif

Significance: 0.00669593

NPC;F129;A;GEO

Pattern: metacluster_1/pattern_16

Significance: 0.0460386

Pattern: motif7.motif

Significance: 0.040392199999999996

RTN;D1;D;En

Pattern: metacluster_0/pattern_3

Significance: 0.00127411

Pattern: motif2.motif

Significance: 0.00237484

wES;RTN;E11.5;D;En

Pattern: metacluster_0/pattern_1

Significance: 0.000879637

Pattern: motif3.motif

Significance: 0.00230796

iVIP_NRN;A;GEO

Pattern: metacluster_1/pattern_6

Significance: 0.050535000000000004

Pattern: motif3.motif

Significance: 0.0166082

G_NRN_P;A;GEO

Pattern: metacluster_1/pattern_14

Significance: 0.00889815

Pattern: motif13.motif

Significance: 0.00897489

Muller;P12;D;En

Pattern: metacluster_1/pattern_5

Significance: 0.0025138

Pattern: motif4.motif

Significance: 0.00681636

wES;WHL_BRN;E14.5;D;GEO

Pattern: metacluster_0/pattern_0

Significance: 0.00196758

Pattern: motif2.motif

Significance: 0.0019278

wES.Fr_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_2

Significance: 0.00281695

Pattern: motif2.motif

Significance: 0.00146953

Fr_BRN;P0;D;En

Pattern: metacluster_1/pattern_10

Significance: 0.021721400000000002

Pattern: motif10.motif

Significance: 0.00870718

Md_BRN;D;En

Pattern: metacluster_1/pattern_3

Significance: 0.0175571

Pattern: motif14.motif

Significance: 0.012265

BL_CN_PHT_RCPTR;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.014482499999999999

Pattern: motif13.motif

Significance: 0.008159399999999999

wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_6

Significance: 0.00300529

Pattern: motif6.motif

Significance: 0.0112762

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

Pattern: metacluster_0/pattern_21

Significance: 0.022484

Pattern: motif16.motif

Significance: 0.00938426

wES;WHL_BRN;E14.5;D;En

Pattern: metacluster_1/pattern_0

Significance: 0.00212061

Pattern: motif2.motif

Significance: 0.00235765

Unique Cell types only TF-MoDISco finds Nkx1-2: #13

Cell typeModiscoHomer
wES;5th_Rhmbmr;E8.5;A;GEO

Pattern: metacluster_0/pattern_22

Significance: 0.0254202

/

Pattern: metacluster_0/pattern_25

Significance: 0.00379006

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

Pattern: metacluster_0/pattern_20

Significance: 0.0189683

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

Pattern: metacluster_1/pattern_13

Significance: 0.000215797

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

Pattern: metacluster_0/pattern_21

Significance: 0.043489

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

Pattern: metacluster_0/pattern_18

Significance: 0.000986104

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

Pattern: metacluster_0/pattern_6

Significance: 5.86843e-05

Absent
NPC;G4;A;GEO

Pattern: metacluster_1/pattern_18

Significance: 0.022274799999999997

Absent
NPC;mE6;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0303168

Absent
iPV_NRN;A;GEO

Pattern: metacluster_1/pattern_7

Significance: 0.00960556

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

Pattern: metacluster_0/pattern_5

Significance: 0.0107508

Absent
Hnd_BRN;P0;D;En

Pattern: metacluster_1/pattern_6

Significance: 0.00382263

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

Pattern: metacluster_0/pattern_16

Significance: 0.00223894

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

Pattern: metacluster_0/pattern_14

Significance: 0.00718623

Absent
Unique Cell types only Homer finds Nkx1-2: #4

Cell typeModiscoHomer
wES.CRNL_NRL_CRST;E10.5;A;GEOAbsent

Pattern: motif3.motif

Significance: 0.0222635

CN_PHT_RCPTR;A;GEOAbsent

Pattern: motif8.motif

Significance: 0.00790793

BRN;OLFTRY_BLB;A;CLAbsent

Pattern: motif7.motif

Significance: 0.047302699999999996

Melanotrope;A;GEOAbsent

Pattern: motif17.motif

Significance: 0.013699700000000002