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How to get sequence size of insertion/deletion in sam file pileup (e.g. using Rsamtools)
Rsamtools
pileup
insertion
deletion
4.2 years ago
madsheilskov
▴ 10
0
votes
3
replies
1.4k
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PureCN gene LOH very common, amp/del not
PureCN
gene
amplification
deletion
loh
updated 4.5 years ago by
markus.riester
▴ 130 • written 4.5 years ago by
twtoal
▴ 10
2 results • Page
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Comment: WGCNA with TPM tables
by
ATpoint
★ 4.5k
WGCNA is not a Bioconductor package, but generally: If you want to do serious analysis then find the raw data. There is no guarantee what …
Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac (
by
Paul
• 0
You are an absolute lifesaver, thank you so much for the clarification!
Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac (
by
James W. MacDonald
67k
The `EnsDb.Mmusculus.v79` package is mm38, not mm39. If you want a current `EnsDb`, use `AnnotationHub` ``` > library(AnnotationHub) >…
Comment: Identical samples after deseq2 batch effect removal
by
Michael Love
42k
I'm adding my comment to the threaded section ... I don't have any suggestions here but whatever method you're using is not appropriate up…
Comment: ANOVA like approach of edgeR
by
Yunshun Chen
▴ 880
If you do it this way, the dispersion estimates would be much higher than they should (as the cell type difference is not accounted for in …
Votes
Answer: ANOVA like approach of edgeR
A: ANOVA-like test with edgeR
Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
A: TopGO: How to retrieve the gene list related to a GO ID ?
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