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kapouranis.andreas
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Answer: RSubread output significantly different from bash Subread output
by
Gordon Smyth
52k
The difference (as ATpoint has correctly pointed out) is that Rsubread::featureCounts counts multi-mapping reads by default whereas the com…
Answer: Deseq2 Error in solve.default(qr.R(qrx)) : 'a' (1 x 0) must be square
by
Michael Love
43k
I would check the rank of your model matrix, and perhaps meet with a local statistician who can help you create an appropriate design matri…
Comment: sva: get a sv for RIN scores
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gabriel.hoffman
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170
Agreed. I'll add that with small sample size, a covariate can explain some fraction of expression variation even under the null.
Comment: RSubread output significantly different from bash Subread output
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Aimee
•
0
Thank you! I will try rerunning with that parameter and see if it fixes the discrepancy! I'll report back.
Update: This completely resolve…
Answer: RSubread output significantly different from bash Subread output
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ATpoint
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4.6k
The R version counts multimappers (countMultiMappingReads is TRUE by default) while the command line version does not. It's beyond me why t…
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