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Answer: bam or VCF files from GSE75010
by
James W. MacDonald
64k
You must be confused. Those are expression arrays, not genotyping, so you cannot do a 'variant calling analysis', whatever you mean by that…
Comment: locateVariant from VariantAnnotation returns wrong results
by
James W. MacDonald
64k
You can also just stuff that 'z' object into an env and use that.
```
> cache <- new.env(parent = emptyenv())
> z <- intronsByTranscript(T…
Answer: 'Subtracting' counts on basis of Negative control media and water samples
by
swbarnes2
★
1.3k
Making a library based on water was a waste of time and resources. No one does this. I don't think there is any reason to think that the …
Comment: locateVariant from VariantAnnotation returns wrong results
by
nhaus
•
0
Thank you very much for your quick reply! I guess if I do not know a priori where the SNP is located, I have to iterate thorugh the differe…
Comment: DESeq: Error in DESeqDataSet(se, design = design, ignoreRank) : some values i
by
Oenone
•
0
I THINK I MIGHT HAVE WORKED IT OUT
for some reason the data file was read in as characters and not integers, reloaded it in with them def…
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