Bioconductor Tcga cnv

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cn.mops cnvtools tcga cnv

updated 8.9 years ago by Günter Klambauer ▴ 540 • written 8.9 years ago by vakul.mohanty ▴ 20

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tcga cnv gene symbol coordinate

updated 23 months ago by James W. MacDonald 67k • written 9.4 years ago by NS ▴ 60

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TCGA CNV correlation between mRNA exprssion and CNV

updated 8.6 years ago by spulido99 • 0 • written 9.5 years ago by ycding ▴ 10

3 results • Page 1 of 1

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Comment: Batch Effect in DESeq2, how to control, how to remove it, how to address biologi by James W. MacDonald 67k

You don't. I believe Fisher has a quote that applies here. Also, please don't add to five year old posts. Start a new one.

Comment: Convert HGVS Representation back to Reference Genome Coordinates by Vince Schulz ▴ 150

Not a bioconductor solution, and probably not easily code-able, but there is a batch validate/convert function available here: https://vari…

Answer: How to control batch effect if Group and batch are same? by ATpoint ★ 4.4k

You cannot do any correction. That's the simple and only answer. You cannot distinguish true biological effect from unwanted technical vari…

Comment: Batch Effect in DESeq2, how to control, how to remove it, how to address biologi by Bioinformagician • 0

How to control batch effect if Group and batch are same?. For example, I have all tumor samples from batch1 and all normal samples from bat…

Answer: [BUG] featureCounts doesn't assign primary alignment of a multi-mapped read, eve by isaac.vock • 0

Sorry, realized this is just a documentation mistake that was addressed in this post: https://support.bioconductor.org/p/9158733/

Votes

Answer: Deseq2 sfType

Answer: SAS token for Annotation package

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