In [1]:
# Parameters
data_name = "Meis3"
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 11:19:49,850 [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)
Meis3: Motif: M03280_2.00



Forward PWM

Reverse PWM

Shared Cell types both TF-MoDISco and Homer finds Meis3: #8

Cell typeModiscoHomer
proB;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.00793162

Pattern: motif15.motif

Significance: 0.013919399999999998

preB_BMD;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.022235599999999998

Pattern: motif9.motif

Significance: 0.024389599999999997

plasmaB;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.00220067

Pattern: motif9.motif

Significance: 0.0113916

DP;A;CL

Pattern: metacluster_1/pattern_10

Significance: 0.014643799999999998

Pattern: motif17.motif

Significance: 0.053396900000000004

B;B220_CD43;A;GEO

Pattern: metacluster_1/pattern_9

Significance: 0.0205582

Pattern: motif11.motif

Significance: 0.027099599999999998

ISP;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0406108

Pattern: motif14.motif

Significance: 0.041265699999999995

Muscle;A;CL

Pattern: metacluster_1/pattern_16

Significance: 0.0329644

Pattern: motif19.motif

Significance: 0.05663680000000001

Heart;D;En

Pattern: metacluster_0/pattern_8

Significance: 0.059384900000000004

Pattern: motif13.motif

Significance: 0.040031

Unique Cell types only TF-MoDISco finds Meis3: #16

Cell typeModiscoHomer
largeDPprecrsr;CD4+CD8+CD69-;A;CL

Pattern: metacluster_1/pattern_5

Significance: 0.024035900000000002

Absent
smallDPprecrsor;CD4+CD8+CD69-;A;CL

Pattern: metacluster_1/pattern_4

Significance: 0.0140255

Absent
wES;5th_Rhmbmr;E8.5;A;GEO

Pattern: metacluster_0/pattern_12

Significance: 0.010247399999999999

Absent
wES;posterior;1;E9.5;A;GEO

Pattern: metacluster_1/pattern_5

Significance: 0.05372040000000001

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

Pattern: metacluster_0/pattern_9

Significance: 0.0400284

/

Pattern: metacluster_0/pattern_13

Significance: 0.031461

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

Pattern: metacluster_0/pattern_10

Significance: 0.0223109

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

Pattern: metacluster_0/pattern_9

Significance: 0.0369758

Absent
BRN;PTMN;A;CL

Pattern: metacluster_1/pattern_15

Significance: 0.033694

Absent
Heart;P0;D;En

Pattern: metacluster_1/pattern_15

Significance: 0.0163988

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

Pattern: metacluster_0/pattern_4

Significance: 0.0488336

Absent
DP3b;A;CL

Pattern: metacluster_1/pattern_3

Significance: 0.0337202

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

Pattern: metacluster_0/pattern_4

Significance: 0.0531841

Absent
wES;Md_BRN;E14.4;D;En

Pattern: metacluster_0/pattern_4

Significance: 0.040211800000000006

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

Pattern: metacluster_0/pattern_24

Significance: 0.043208300000000005

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

Pattern: metacluster_0/pattern_10

Significance: 0.027410200000000003

/

Pattern: metacluster_0/pattern_19

Significance: 0.014249000000000001

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

Pattern: metacluster_1/pattern_21

Significance: 0.024956799999999998

Absent
Unique Cell types only Homer finds Meis3: #11

Cell typeModiscoHomer
LNG;P0;D;EnAbsent

Pattern: motif18.motif

Significance: 0.00918805

preB;A;CLAbsent

Pattern: motif12.motif

Significance: 0.011386

Heart;8wks;D;EnAbsent

Pattern: motif11.motif

Significance: 0.0380921

SKLTL_Muscle;8wks;D;EnAbsent

Pattern: motif10.motif

Significance: 0.0169771

NPC;F129;A;GEOAbsent

Pattern: motif10.motif

Significance: 0.026306200000000002

NPC;G4;A;GEOAbsent

Pattern: motif9.motif

Significance: 0.0446055

NPC;Ch13;A;GEOAbsent

Pattern: motif13.motif

Significance: 0.0219375

NPC;mE6;A;GEOAbsent

Pattern: motif11.motif

Significance: 0.0587276

DP3a;A;CLAbsent

Pattern: motif12.motif

Significance: 0.0212048

G_NRN_P;A;GEOAbsent

Pattern: motif5.motif

Significance: 0.031009

ThMS_MEC;Aire++;A;GEOAbsent

Pattern: motif12.motif

Significance: 0.0119476