Hi,
I encountered the following "Error: Unsupported index type: factor" when running normfinder(cpm_filt_tmm_for_HK, ctVal=TRUE, group = TRUE, cq = "value") with
> head(cpm_filt_tmm_for_HK)
sample value gene group
1 nth_CS297 17.991638 LOC105678280 Ahipara
2 nth_CS297 287.127637 LOC105678292 Ahipara
3 nth_CS297 46.293755 LOC105678279 Ahipara
4 nth_CS297 17.518951 LOC105678278 Ahipara
5 nth_CS297 64.964881 LOC105678296 Ahipara
6 nth_CS297 3.131549 LOC105669935 Ahipara
> str(cpm_filt_tmm_for_HK)
'data.frame': 122316 obs. of 4 variables:
$ sample: Factor w/ 12 levels "nth_CS297","nth_CS298",..: 1 1 1 1 1 1 1 1 1 1 ...
$ value : num 18 287.1 46.3 17.5 65 ...
$ gene : chr "LOC105678280" "LOC105678292" "LOC105678279" "LOC105678278" ...
$ group : chr "Ahipara" "Ahipara" "Ahipara" "Ahipara" ...
> str(row.names(cpm_filt_tmm_for_HK))
chr [1:122316] "1" "2" "3" "4" "5" "6" "7" "8" "9" "10" "11" "12" "13" "14" "15" "16" "17" ...
> str(colnames(cpm_filt_tmm_for_HK))
chr [1:4] "sample" "value" "gene" "group"
Any idea where the problem might come from?
Hi,
I encountered the following
"Error: Unsupported index type: factor"when runningnormfinder(cpm_filt_tmm_for_HK, ctVal=TRUE, group = TRUE, cq = "value")withAny idea where the problem might come from?