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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…

Comment: DESeq: Error in DESeqDataSet(se, design = design, ignoreRank) : some values i by Oenone • 0

Here are some of the values for the returned call of: ``` below_zero <- apply(miRNA_counts < 0, 1, sum) > 0 below_zero ``` ![The retur…

Answer: locateVariant from VariantAnnotation returns wrong results by James W. MacDonald 64k

This is a [known and so far unfixed issue][1]. ``` > mapToTranscripts(snp, intronsByTranscript(TxDb.Hsapiens.UCSC.hg19.knownGene)) GR…

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Comment: Ensembl down???

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