Request to Replace Sweave Vignettes with R Markdown

[sonali8434]

Hello @hredestig, I'm a Sweave2Rmd volunteer. @jwokaty and I are trying to replace Bioconductor Sweave vignettes with R Markdown. It has many advantages over Sweave vignettes, such as R Markdown converts to HTML, uses BiocStyle, and is easier to maintain.

Would you consider accepting a pull request for the R Markdown version of following vignettes from one of our volunteers?

• pcaMethods/vignettes/missingValues.Rnw
• pcaMethods/vignettes/outliers.Rnw
• pcaMethods/vignettes/pcaMethods.Rnw

We'll ask you to review and accept the pull request. You'll also need to bump the version number in your DESCRIPTION file so that the Bioconductor build machines will recognize that a new version is available.

Thank you for your time, I look forward to your response.

[hredestig]

Yes I would be happy to review such a PR. Thanks!

[jwokaty]

@hredestig Could we ask you to sync your GitHub repository since the last update was from 2020?

During that time, Bioconductor transitioned to renaming the default branch from master to devel`. You can read about the change and how to do the change on your local machine and in GitHub at https://contributions.bioconductor.org/branch-rename-faqs.html.

Then you can sync your repository with git.bioconductor.org https://contributions.bioconductor.org/git-version-control.html#sync-existing-repositories.

[hredestig]

Sorry for the tardiness and thanks for the comments! I synced to upstream and changed the default branch to devel.