newest version of R and bioconductor not compatible with cerebroApp

[lakikowolfe]

I recently tried to begin using cerebroApp to visualize single cell data and am having trouble installing and using the package. I am using Bioconductor version 3.13 (BiocManager 1.30.16) and R 4.1.0.

When I run BioCManager::install("cerebroApp") I get this error:

In .inet_warning(msg) :
  package ‘cerebroApp’ is not available for Bioconductor version '3.13'

Which version of Bioconductor and R do you recommend for running this application?

[lakikowolfe]

Based on the sessionInfo() shown here I reverted R to 4.0.3 and Bioconductor to 3.12. I am still getting the same error as above.

I tried using install.packages as shown here and got the following error: package ‘cerebroApp’ is not available for this version of R

[romanhaa]

Hi Lauren! cerebroApp has never been added to the Bioconductor repositories, so you'll have to add the romanhaa/ prefix to the package name to install it from GitHub directly. It's just recommended to use the Bioconductor installer to get all the dependencies. So the command to install cerebroApp would be:

BiocManager::install("romanhaa/cerebroApp")

Note: I cannot test this with the newest versions of R and Bioconductor so no guarantee that it'll work, but it should at the very least bring you one step forward.

[lakikowolfe]

Hi! I appreciate your quick response and will give this a try. I definitely would recommend you update your articles to reflect this because it is not clear.