Software: edgeR bioconductor R package
Description: edgeR for paired significant test use generalized linear model and likelihood ratio test to calculate the p-value for each genes/transcript.
Error: when any zero value contain in the count matrix, it shows:
Error in beta[k, ] <- betaj[decr, ] :
NAs are not allowed in subscripted assignments
Solution: first filter out the all-zero rows in the matrix, then transform the matrix by matrx + 1 to create non-zero matrix.
Question: compared to the large size of the library, the different in library size effecting on 1 could be neglected?
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