Question

rnaSeqGene workflow not available in Bioconductor 3.18

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Nadine ▴ 60

@963c6cc7

Last seen 12 months ago

United Kingdom

The page I had saved for the rnaseqgene workflow is not working anymore. I realised this is due to the vignette not being available in Bioconductor's latest release (3.18, released 25Oct2023).

Previous release: bioc3.17

Current release: bioc3.18

Installing the package with BiocManager::install("rnaseqGene") also gave an error saying the package could not be found. A colleague tested that for me, as I already had the package installed, so I don't have much more details about that, but I leave this info here as it may be related.

rnaseqGene Bioconductor3.18 DifferentialExpression release • 834 views

ADD COMMENT • link updated 12 months ago by Michael Love 43k • written 12 months ago by Nadine ▴ 60

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~~I *think* it is due to a typo in a recent update of the GitHub link but not entirely sure.~~

The developer will probably have fixed this in no time (https://github.com/thelovelab/rnaseqGene/issues/5).

ADD REPLY • link 12 months ago ATpoint ★ 4.6k

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The github url has nothing to do with Bioconductor. It would be nice to have this fixed and accurate but not affecting what propagates to Bioconductor users.

ADD REPLY • link 12 months ago shepherl 4.1k

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Fixed the url.

ADD REPLY • link 12 months ago Michael Love 43k

score 0 · Answer 1 · 2023-11-07

https://bioconductor.org/checkResults/release/workflows-LATEST/rnaseqGene/ The rnaseqGene package is not available because the dependent package ReportingTools is not available. I have reached out to ReportingTools as they fixed there ERROR in devel but not RELEASE_3_18 branch. Once this is resolved it should become available.