Question

Submitting a new package prior to publication

0

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Krutik Patel ▴ 10

@kpatel5-22049

Last seen 18 months ago

Newcastle University, UK

Hello Bioconductor Forum,

I am about to submit my first package to bioconductor as a part of my PhD. I am aiming to get my package on bioconductor and then write a publication for it to a journal. This would mean I do not have a citation to add to the INST directory. Is it OK not to have a citation at this point? Should I just add an authors file on the INST directory instead of a citation file?

What have other developers done in this situation?

Best

Krutik

package-creation citation submit-package • 702 views

ADD COMMENT • link updated 4.9 years ago by shepherl 4.1k • written 4.9 years ago by Krutik Patel ▴ 10

score 2 · Accepted Answer · 2020-01-13

2

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shepherl 4.1k

@lshep

Last seen 1 day ago

United States

It is not required to have a citation in the INST directory. It can be added at any time. Packages receive a generic citation if there is none found in INST.
For example BiocFileCache does not have a citation file so the suggested citation that is automatically generated:

Citation (from within R, enter citation("BiocFileCache")):
    Shepherd L, Morgan M (2019). BiocFileCache: Manage Files Across Sessions. R package version 1.10.2.

ADD COMMENT • link 4.9 years ago shepherl 4.1k

1

Entering edit mode

Also for what it's worth - when you submit your paper (assumingly you get your package on Bioconductor) we suggest using a short url for the package (ie. https://bioconductor.org/packages/::packageName::) as this will link to the release version of bioconductor if available and devel if not. Cheers

ADD REPLY • link 4.9 years ago shepherl 4.1k