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Matthew Ritchie
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Comment: DESeq2 analysis with transcript counts
by
Sink
•
0
Your workflow seems good for a beginner! Using nf-core for RNASeq processing and DESeq2 for differential expression analysis is a standard …
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
by
ATpoint
★
4.6k
Annotation packages have their value. They are a convenient and stable way to make annotations accessible inside R, they are version-contro…
Comment: Installation error for Rsamtools.
by
ATpoint
★
4.6k
In other words to what James wrote, the package is already installed, there is nothing you need to do.
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
by
ATpoint
★
4.6k
Given that the annotation versions were the same the results *should* be identical, but for such a simple task as making a tx2gene why not …
Answer: Differential variability modelling with vst() expression
by
Gordon Smyth
52k
See
Phipson, B., Oshlack, A. DiffVar: a new method for detecting differential variability with application to methylation in cancer and …
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