Open DarioS opened 1 month ago
Two patients belong to each group. Looking at the number of cells per sample, I think there are enough cells to test.
2 common reasons ... no cell type has enough cells in >=2 samples per group.
> table(allHumanPairs$samples, allHumanPairs$cellType) iCAF mCAF.1 mCAF.2 tpCAF tpCAF..Dividing. Tumor vCAF OSCC_16.M 7 95 86 1381 104 2143 0 OSCC_16.P 588 117 17 1691 501 1185 18 OSCC_22.M 9 7 15 428 444 1689 0 OSCC_22.P 263 61 3 818 676 2176 14 OSCC_24.M 3 23 19 386 267 1687 0 OSCC_24.P 9 134 16 1430 838 1814 4 OSCC_60.M 5 30 11 857 248 1654 0 OSCC_60.P 5 51 10 307 142 3563 0 > table(allHumanPairs$samples, allHumanPairs$Smoker) No Yes OSCC_16.M 0 3816 OSCC_16.P 0 4117 OSCC_22.M 0 2592 OSCC_22.P 0 4011 OSCC_24.M 2385 0 OSCC_24.P 4245 0 OSCC_60.M 2805 0 OSCC_60.P 4078 0
But, all cell types were excluded.
[1] "DE analysis is done:" [1] "included cell types are:" NULL [1] "excluded cell types are:" [1] "Tumor" "iCAF" "tpCAF" "tpCAF..Dividing." "mCAF.1" "mCAF.2" "vCAF"
Two patients belong to each group. Looking at the number of cells per sample, I think there are enough cells to test.
But, all cell types were excluded.