Documenting resources in an `ExperimentHub` package?
1
0
Entering edit mode
Tim Barry • 0
@2871c8cd
Last seen 25 days ago
United States

Hello,

I am working on preparing my ExperimentHub package for submission to Bioconductor. The package provides access to four datasets, each of which is stored on Zenodo. Is it possible for me to document these datasets individually within the package? I found the following paragraph in the ExperimentHub documentation:

resource man pages: Resources can be documented on the same page, grouped by common type or have their own dedicated man pages. Man page(s) should describe the resource (raw data source, processing, QC steps) and demonstrate how the data can be loaded through the standard hub interface.

How should I go about creating these man pages? In particular, which R objects should I document within these man pages? Is there any example ExperimentHub package that would be helpful for me to look at? Unfortunately, I was unable to find an ExperimentHub package that follows this paradigm.

Thanks,

Tim

AnnotationHub ExperimentHub • 162 views
ADD COMMENT
1
Entering edit mode
@james-w-macdonald-5106
Last seen 14 hours ago
United States

The easiest way to do that IMO is to use emacs/ESS (or I believe there is some newfangled thing called RStudio? Not personally familiar, but I hear tell) to add inline documentation to your functions and then use the roxygen2 package to generate the help files. Here is an example you could emulate. There is also a vignette for roxygen2.

Login before adding your answer.

Traffic: 811 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6