Hi

I was trying to install GenVisR as suggested on the bioconductor page. But it didn't install and there was an error message:

> source("http://bioconductor.org/biocLite.R")
Bioconductor version 3.2 (BiocInstaller 1.20.1), ?biocLite for help
> biocLite("GenVisR")
BioC_mirror: https://bioconductor.org
Using Bioconductor 3.2 (BiocInstaller 1.20.1), R 3.2.3 (2015-12-10).
Installing package(s) ‘GenVisR’
Old packages: 'boot', 'MASS', 'mgcv', 'spatial'
Update all/some/none? [a/s/n]: n
Warning message:
package ‘GenVisR’ is not available (for R version 3.2.3)

Any ideas on how to deal with this?

Thanks

Best

Deep

Thanks for your responses. I have R3.2.3. Not being able to install genvisR right now. Any advise on whether there is another R package to visualise exome data? Some of the things I want to do are:

1. show SNPs for specific genes across individuals,

2. show subsets of genes with SNPs from one individual

3. visualise gene location for SNPs

Sorry if these questions seem vague. Appreciate whatever help I can get with this ...

Thanks, Deep

Hi Dan

Thanks for the reassurance. This was happening because I couldn't get devtools to install, and that was because I didn't have libssl-dev, so I installed that, and then devtools, then GenVisR installation worked. Hope genvisR works now.

Unix:

sudo apt-get install libssl-dev

R:

install.packages("devtools")
devtools::install_github("griffithlab/GenVisR")

Thanks, Deep

GenVisR only exists in the devel version of Bioconductor, which runs on R-devel (the not-yet-released version of R which will become R-3.3 on April 14). So your options are to install R-devel or to wait until the next Bioconductor release, on April 15th.

GenVisR also has a development page on github (see link below), you could follow the install instructions there until it is available on the Bioc-release branch. If you choose this approach it is still recommended to have R >= 3.2.2 but you won't need to download R-devel.

https://github.com/griffithlab/GenVisR