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Question: Error in DEXSeq
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12 months ago by
zhan09490
zhan09490 wrote:

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.

written 12 months ago by zhan09490

Hi, could you include the code that reproduces the error and the output of your sessionInfo()? Could you also print the colData of you object?

Alejandro