Bioconductor DES

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611

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DESeq2 DES

updated 3.4 years ago by Michael Love 41k • written 3.4 years ago by heikki.sarin ▴ 10

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564

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DES DESIGN

updated 19 months ago by Michael Love 41k • written 19 months ago by mike • 0

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503

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DESeq2 des

updated 17 months ago by Michael Love 41k • written 18 months ago by Devin • 0

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337

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DESeq2 RUVSeq RUVseq BatchEffect DES

updated 6 days ago by James W. MacDonald 65k • written 6 days ago by Alexandre • 0

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218

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DESeq2 DEs

6 weeks ago feather-W • 0

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128

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Des DESeq2

updated 19 days ago by hemantcnaik • 0 • written 19 days ago by Sahar • 0

6 results • Page 1 of 1

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Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position) by Yveto • 0

Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…

Answer: More regions in union when increasing DBA$config$mergeOverlap by Rory Stark ★ 5.2k

I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …

Comment: log2FoldChange value is way too different when compared with counts(dds) by Michael Love 41k

But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…

Comment: log2FoldChange value is way too different when compared with counts(dds) by HAK • 0

Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by ATpoint ★ 4.1k

Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…

Votes

Bioconductor 3.19 is Released!

Answer: DEseq2 coefficient

SPIA plotP giving error

Answer: Fold change calculation in Diffbind vs. DESEQ2?

C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB

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Scholar to Rory Stark ★ 5.2k

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