Biostar TopmedPipeline

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TopmedPipeline

updated 3.6 years ago by shepherl 3.4k • written 3.6 years ago by winstondunnmd ▴ 10

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Comment: TxDB.Hsapiens.UCSC.hg38.knownGene with locateVariants() identifying SNPs from va by davidhillis • 0

Thank you!

Comment: Time-course, comparison of two groups by boczniak767 ▴ 720

Thank you Gordon for your time and patience, I'd try to be more specific. I've read carefully the three first chapters of `edgeR` user guid…

Comment: TxDB.Hsapiens.UCSC.hg38.knownGene with locateVariants() identifying SNPs from va by James W. MacDonald 62k

This works for me. ``` > library(VariantAnnotation) > library(TxDb.Hsapiens.UCSC.hg19.knownGene) > txdb <- TxDb.Hsapiens.UCSC.hg19.knownGe…

Comment: How to deal with the negative values from EBPlusPlusAdjustPANCAN_IlluminaHiSeq_R by Gordon Smyth 47k

It isn't clear what data you are trying to analyse. Please give a link to the data that you downloaded and explain what sort of data it is …

Comment: Time-course, comparison of two groups by Gordon Smyth 47k

I did not suggest analysing each time point separately, that would obviously be sub-optimal. In a standard analysis, time would enter as a …

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