Bioconductor Spikein

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3.7k

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edgeR SpikeIn RNASeq

updated 7 months ago by Miguel • 0 • written 3.2 years ago by robert.chen • 0

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3.0k

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CUTandRUN edgeR Normalization SpikeIn ChIPSeq

updated 17 months ago by Bogdan ▴ 670 • written 3.5 years ago by Hesh ▴ 10

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1.7k

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DESeq2 SpikeIn Normalization DifferentialExpression

updated 15 months ago by ATpoint ★ 4.1k • written 15 months ago by kalavattam ▴ 10

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1.6k

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DiffBind SpikeIn Normalization ChIP-seq csaw

16 months ago spg • 0

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1.3k

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DESeq2 SpikeIn Normalization

updated 15 months ago by Michael Love 41k • written 15 months ago by kalavattam ▴ 10

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1.1k

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ChIPSeq SpikeIn edgeR Normalization

2.8 years ago • updated 2.7 years ago maria.soler • 0

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902

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DiffBind ChIPSeq Normalization SpikeIn

2.6 years ago Drew • 0

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701

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SpikeIn SingleCell

2.7 years ago mb1996 • 0

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585

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SpikeIn DiffBind

13 months ago Weisheng • 0

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DiffBind Errorinsocketconnection SpikeIn

15 days ago Virangika • 0

10 results • Page 1 of 1

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Answer: Store output of matchPWM() by James W. MacDonald 65k

Something like this? ``` ind <- as.logical(sapply(hitlist, length)) out <- do.call(c, lapply(hitlist, function(x) as(x, "IRanges"))) …

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

This has been asked before, but with a multi factor design, the LFC for coefficient X adjust for the others, in a way that is often hard to…

Answer: Get genomic coordinates of CpGs sites (chromosomes, genomic position) by James W. MacDonald 65k

You don't say what array that is, so I will guess. ``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame…

Answer: SGSeq: moving toward diffex from SGSeq analysis by Leonard Goldstein ▴ 200

`vid` and `eid` are unique identifiers for splice variants and splicing events respectively. They are analogous to exon bin and gene identi…

Comment: Help with error using camera() in limma by Chris • 0

Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.

Votes

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

C: Extremely big genes in annotation TxDb packages

Make custom Txdb class objects from Txdb

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