Bioconductor Edger

Showing : edger • reset

votes

replies

7.7k

views

deseq2 edgeR rna-seq

updated 20 hours ago by Elizabeth • 0 • written 8.8 years ago by gthm ▴ 30

votes

replies

views

subsettingdata edgeR designmatrix

updated 1 hour ago by Gordon Smyth 50k • written 17 hours ago by prity6459 • 0

votes

replies

132

views

edgeR

updated 1 hour ago by Gordon Smyth 50k • written 1 day ago by Jonathan ▴ 10

votes

replies

views

DGEList edgeR

2 hours ago • updated 1 hour ago prity6459 • 0

votes

views

limma edgeR RNASeq

updated 2 hours ago by Gordon Smyth 50k • written 1 day ago by Shaimaa Gamal • 0

5 results • Page 1 of 1

Recent ...

Replies

Comment: Estimating Cell Counts for EPIC V2 array data by normawiedman059 • 0

0 [103] spam_2.9-1 doParallel_1.0.17 iterators_1.0.14 [106] foreach_1.5.2 beeswarm_0.4.0 tgp_2.4-20 [109] beanplot_1.3.1 fpc_2.2-9 dbscan_1…

Comment: Finding DEGs by using edgeR by Gordon Smyth 50k

Filtering (removing lowly expressed genes) is separate to normalization. It isn't clear why not subsetting would cause any difficulty. It …

Comment: How to make DGEList and design matrix by edgeR package by prity6459 • 0

Thank you for your suggestion. Yes, I have made DGEList and design matrix in my script. But I was not entirely confident while making thos…

Comment: Finding DEGs by using edgeR by prity6459 • 0

Hello Gordon, Thanks for your response. By normalization, I meant that I have already removed lowly expressed genes from my count matrix. …

Answer: FilterByExpr low counts with small sample size by Gordon Smyth 50k

It doesn't seem to me that there is necessarily any problem with the analysis. You say that there are "too many low-reads" but actually th…

Votes

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Awards • All