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Question: Packages employing RangedSummarizedExperiment objects
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gravatar for rbronste
20 days ago by
rbronste50
rbronste50 wrote:

Im wondering if there is an easy way to get a list of all R packages that are currently using RangedSummarizedExperiment object inputs?

Thanks!

ADD COMMENTlink modified 20 days ago by Aaron Lun18k • written 20 days ago by rbronste50
2
gravatar for Aaron Lun
20 days ago by
Aaron Lun18k
Cambridge, United Kingdom
Aaron Lun18k wrote:

Do you need RangedSummarizedExperiment specifically? If not, then you could always look at the reverse-dependencies (and reverse-imports, and reverse-suggests) at https://bioconductor.org/packages/SummarizedExperiment. Presumably all of the listed packages use SummarizedExperiment or its subclasses. Any method/function written for a SummarizedExperiment would also work on an RSE object, so those packages would fit your criterion even if they're not written explicitly for RSE inputs. The only packages that don't fit would be those that derive a new, non-RSE class from SummarizedExperiment; I don't think there's an easy way of pruning them out other than to manually inspect them.

ADD COMMENTlink modified 20 days ago • written 20 days ago by Aaron Lun18k

Thanks, what I was looking for!

ADD REPLYlink written 19 days ago by rbronste50
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