I am trying to use DEXSeq to do the differential exon expression analysis. I met a problem as some other met:
All gene-wise dispersion estimates are within 2 orders of magnitude from the minimum value, and so the standard curve fitting techniques will not work.
I know the error is reported in DEseq2, and the solution post online is not available for DEXSeq. I am sure the paired of samples are biological replicates. Could you please let me know whether this can be solved in DEXSeq and report the p-values for the exons?
I used to use a early version of DEXSeq (<1.8) and it did not report the error, but my current environment setup does not allow me to use this early version.