IIBMP2018

8. X

9. X X1 X2 X3
^ ^ ^

10. X
u1'◦v1' u2'◦v2' u3'◦v3'
X1 X2 X3
^ ^ ^

11. X
u1'◦v1' u2'◦v2' u3'◦v3'
u1◦v1 u2◦v2 u3◦v3
X1 X2 X3
^ ^ ^
λ1 λ2 λ3

12. X
u1'◦v1' u2'◦v2' u3'◦v3'
u1◦v1 u2◦v2 u3◦v3
UΛVT
X1 X2 X3
^ ^ ^
λ1 λ2 λ3

13. χ
A(1)
A(2)
A(3)
S

14. χ
S
S

16. χ
A(1)
A(2)
A(3)
S
χ(1,1,1)
χ
χ
S(1,1,1)
S(1,1,2)
S(J1,J2,J3)
(1,1,2)
(J1,J2,J3)
^
^
^

18. x
y
z

19. χ
A(1)
A(2)
A(3)
S

20. a(3)3:
a(1)2: a(2)1:
(2, 1, 3)

22. library(scTensor)
library(SingleCellExperiment)
library(LRBase.Hsa.eg.db)
data(“GermMale”) # Data matrix (486genes × 852cells, 7class, 3.5MB)
data(“tsneGermMale”) # The result of Rtsne (21kb)
data(“labelGermMale”) # Celltype label (15kb)
sce <- SingleCellExperiment(assays = list(counts = GermMale))
reducedDims(sce) <- SimpleList(TSNE = tsneGermMale$Y)
cellCellSetting(sce, LRBase.Hsa.eg.db, labelGermMale, names(labelGermMale))
rks <- cellCellRanks(sce)
cellCellDecomp(sce, ranks=rks)
cellCellReport(sce, reducedDimNames="TSNE", out.dir=tmp,
title="Cell-cell interaction within Germline, Male, GSE86146",
author="Koki Tsuyuzaki", thr=80)