Entering edit mode
4.1 years ago
evelyn
▴
230
Hello,
I am doing:
ddsTxi <- DESeqDataSetFromTximport(txi, colData = samples, design = ~ condition)
But I get this error:
Error in DESeqDataSetFromMatrix(countData = counts, colData = colData, :
ncol(countData) == nrow(colData) is not TRUE
I checked if the row names for samples
is same as column names for txi
. Column names are longer with additional prefixes and suffixes. samples
have row names as automatic counting. Even if I do not exclude that, it is still complaining the same. Thank you!
IIRC, you should have one column per sample in
txi
and one row per sample insamples
. Expression matrix is usually a gene (rows) by samples (column) matrix, and sample data is one row of metadata per sample.Please show us the output to:
If they are not the same, try correcting that first and then running the import again.
Thank you,