Search
Question: Outdated packages in R 3.4.2
0
gravatar for worldoffred
10 days ago by
worldoffred0 wrote:

Hi all,

New to bioinformatics and am having trouble with RNAseq data analysis - namely alot of the packages recommended are 'not available for R version 3.4.2'
Is there a repository for the most up to date packages of limma and edgeR among others for example?

Thanks in advance

ADD COMMENTlink modified 8 days ago by Gordon Smyth32k • written 10 days ago by worldoffred0
1

Please be more specific. Are you using biocLite from BiocInstaller  1.28.0?

ADD REPLYlink written 10 days ago by Aaron Lun17k
1
gravatar for Gordon Smyth
8 days ago by
Gordon Smyth32k
Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia
Gordon Smyth32k wrote:

No, there isn't any problem with availability of packages. All the packages used in the limma or edgeR workflows are readily available for R 3.4.2 or 3.4.3. Just follow the installation instructions explained in https://www.bioconductor.org/install .

Briefly you start R, then type

source("https://bioconductor.org/biocLite.R")
biocLite("limma")
biocLite("edgeR")

etc.

This will install the latest versions of the packages.

ADD COMMENTlink modified 7 days ago • written 8 days ago by Gordon Smyth32k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.2.0
Traffic: 292 users visited in the last hour