[Bioc-devel] EXTERNAL: Accessing package citation info programmatically without running R?

Marcel Ramos Marcel.Ramos at roswellpark.org
Tue Apr 17 20:39:57 CEST 2018

Hi Ryan,

Thanks for pointing this out.

I'm not sure what you mean by "structured" or "format". We do have
public facing citations
which can be found at:

(Thanks Lori for locating these pages!)

And even with a web-browsable git repository (as you mentioned), one
would still only be able
to get the "unprocessed" CITATION file. The best way to programmatically
get these at the moment
is through the git repository via:

git archive
--remote=git at git.bioconductor.org:packages/MultiAssayExperiment.git \
   HEAD inst/CITATION | tar -xO inst/CITATION > citation.txt

although, we would have to provide the CiteAs service with a key for
read-only access.

Best regards,


On 04/17/2018 12:44 PM, Ryan Thompson wrote:
> There's a nice online tool called CiteAs which tries to figure out the
> proper citation for a given URL. I've recently helped the author to add
> support for extracting the DOI from Bioconductor package information pages:
> https://github.com/Impactstory/citeas-api/issues/12
> This is a good start, but is suboptimal, since some many packages have
> actual published articles which should be used as the canonical citation
> instead of the package's URL. However, I'm not sure how to get this
> citation information in a structured format short of running R and
> installing the package, which isn't really an option for a web service like
> this, which wants to return a result quickly. Does anyone know a good way
> to access this info?
> Thanks,
> Ryan Thompson
> 	[[alternative HTML version deleted]]
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