Bioconductor Rnaseq analysis

Showing : rnaseq analysis • reset

votes

replies

5.5k

views

deseq2 timecourse multiple factor design RNAseq analysis differential gene expression

updated 8.5 years ago by Gavin Kelly ▴ 690 • written 8.5 years ago by c.nicole ▴ 50

votes

replies

4.4k

views

rnaseq analysis variancestabilizingtransformation normalization cpm edger

updated 7.8 years ago by Wolfgang Huber ★ 13k • written 7.8 years ago by svlachavas ▴ 840

votes

replies

1.1k

views

rnaseq analysis

updated 7.2 years ago by James W. MacDonald 68k • written 7.2 years ago by marak • 0

votes

replies

2.9k

views

filterByExpression edgeR RNAseq analysis edger

updated 6.0 years ago by Gordon Smyth 53k • written 6.0 years ago by hcnbox • 0

vote

replies

3.0k

views

limma differential gene expression rnaseq analysis alignment RSEM

updated 8.2 years ago by Aaron Lun ★ 29k • written 8.2 years ago by goldberg.jm ▴ 10

5 results • Page 1 of 1

Recent ...

Replies

Answer: Is it still possible to do batch correction for my data? by Gordon Smyth 53k

I agree with the comments from James MacDonald, but I will add that if you use the standard linear model correction for batch ``` design <-…

Answer: specifying refColumn in calcNormFactors() by Gordon Smyth 53k

Your question is about cross-validation rather than specifically about edgeR. A general principle of cross-validation is that you must norm…

Answer: Sex prediction in sesame for EPICV2 by Tim Peters ▴ 230

Hi Pooja, There is a tutorial for preprocessing EPICv2 via sesame here: https://clark-lab.github.io/EPICv2_tutorial/. There is no call t…

Comment: Convergence Issues and Model Selection DESeq2 by dani.guan.3 • 0

Thank you, I appreciate your time and help.

Comment: Convergence Issues and Model Selection DESeq2 by Michael Love 43k

> out of my 30,229 genes, 795 (2.6%) are better explained ... Not exactly. Frequentist statistics is not symmetric in this way. If it were…

Votes

DiffBind dropping peaks in ATAC-seq data

A: decideTests() options in LIMMA

A: Removing cell cycle genes in large data set integration

Answer: Quick two questions on limpa

Awards • All