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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…

Comment: Result from GSEA for non-model organism not as expected by James W. MacDonald 64k

I asked you in a previous thread to **not add comments to old threads** and instead start a new one. Please follow that advice. It's fine i…

Comment: Problem making orgdb package for bacteria (Pseudomonas) using annotation hub and by James W. MacDonald 64k

This is something you should be able to work out on your own. When you get an error, you have to read it and try to figure out what it mean…

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Comment: Ensembl down???

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