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Posts by sf533
htseq-count results in all reads with no feature - chromosome naming mismatch issue between genome and annotation
... Hi, I am sorry that this similar question has been asked before but I have read through endless posts and can't find solution. I have mapped my reads using Tophat and have 97% reads mapped. But when I then try to run htseq_count all my reads are coming up as no feature. Please see attached picture ...
... Hi, I wish to use the Deseq2 tool on Galaxy but I am unsure how to incorporate the fact that my samples are matched patient samples before and after treatment. The primary factor that effects gene expression will be Treatment (before and after). However I also want to account for the secondary fa ...
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