Including data from a non-Bioc package

[lawremi]

I have data from a previous tutorial in a package available through GitHub but not Bioc. Can we somehow integrate that using devtools or something?

[lwaldron]

Do you mean having a "lawremi/myrepo" import? I don't see why not, but @lshep is building the conference AMIs and would know better than me. There have been GitHub dependencies for workshops in the past.

[lshep]

Yes adding github package dependencies shouldn't be an issue for us on the AMI. I don't know how well that plays with Bookdown if there are examples in the bookdown document that would use it?

[LiNk-NY]

Hi Lori, @lshep
We'd add these dependencies in the .travis.yml and DESCRIPTION files.
In the .travis.yml there is a section for r_github_packages. Repos can be added there.

[drisso]

You may also need to add a Remotes: section in the DESCRIPTION file. See e.g., our workshop tutorial from last year (when slingshot was not yet in Bioconductor):
https://github.com/fperraudeau/bioc2017singlecell/blob/master/DESCRIPTION

[lshep]

probably a good idea @LiNk-NY do you agree this is needed in the DESCRIPTION too?

[LiNk-NY]

Yes, I guess it wouldn't hurt and may be preferable to modifying the .travis.yml file. 👍