Question: can not install Bioconductor on R studio
gravatar for mikysyc2016
17 months ago by
mikysyc201660 wrote:

Hi all, I can not install Bioconductor on R. Please see below. And I try different method, or use Bioconductor Website command. All of them do not work.

install.packages("bioconductor") Installing package into ‘/home/yachen/R/x86_64-pc-linux-gnu-library/3.4’ (as ‘lib’ is unspecified) Warning in install.packages : package ‘bioconductor’ is not available (for R version 3.4.4)

R • 3.4k views
ADD COMMENTlink modified 17 months ago by Kevin Blighe51k • written 17 months ago by mikysyc201660
gravatar for Kevin Blighe
17 months ago by
Kevin Blighe51k
Kevin Blighe51k wrote:

Update 9th January 2019:

From Bioc 3.8 (I believe), the new way to install Bioconductor base packages is like this:

if (!requireNamespace("BiocManager"))

Individual packages are then installed with:

BiocManager::install(c("GenomicFeatures", "AnnotationDbi"))

et cetera




Old post:

Hello and good evening wherever you are,

Bioconductor is not a package. It is a consortium / environment that maintains many R packages.

When you run R, you can 'connect' to the Bioconductor 'server' with:




After that, running biocLite() will update many fundamental R packages to their latest versions.

Running biocLite() with a package name as parameter will search for and install that package. For example:


You can then load the package's function into R via:




Packages can also be installed via CRAN with the install.packages() function, but CRAN does not seem to maintain their R packages as well as Bioconductor. On many occasions, CRAN will say that a particular package for your version of R does not exist, when it may already exist via Bioconductor.

Remember that Bioconductor is just a consortium. There are people behind that consortium who work hard to keep packages updated.


ADD COMMENTlink modified 10 months ago • written 17 months ago by Kevin Blighe51k

Hi, Thank you for your reply. I still can not run.

biocLite() BioC_mirror: Using Bioconductor 3.6 (BiocInstaller 1.28.0), R 3.4.4 (2018-03-15). installation path not writeable, unable to update packages: cluster, foreign, MASS, Matrix, nlme, survival

ADD REPLYlink written 17 months ago by mikysyc201660

Please read the error log: installation path is not writeable.

Please check the path permission.

ADD REPLYlink written 17 months ago by shenwei3564.9k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1590 users visited in the last hour