[R] [Pkg-Collaboratos] BioShapes Almost-Package

[Bert Gunter]

1. R-package-devel is where queries about package protocols should go.

2. But...
"Is there a succinct, but sufficiently informative description of
documentation tools?"
"Writing R Extensions" (shipped with R) is *the* reference for R
documentation. Whether it's sufficiently "succinct" for you, I cannot say.

"I find that including the documentation in the source files is very
distracting."
?? R documentation (.Rd) files are separate from source (.R) files. Inline
documentation in source files is an "add-on" capability provided by
optional packages if one prefers to do this. Such packages parse the source
files to extract the documentation into the .Rd files/ So not sure what you
mean here. Apologies if I have misunderstood.

" I would prefer to have only basic comments in the source
files and an expanded documentation in a separate location."
If I understand you correctly, this is exactly what the R package process
specifies. Again, see the "Writing R Extensions" manual for details.

Also, if you wish to have your package on CRAN, it requires that the
package documents all functions in the package as specified by the "Writing
..." manual.

Again, further questions and elaboration should go to the R-package-devel
list, although I think the manual is really the authoritative resource to
follow.

Cheers,
Bert



On Sun, Sep 3, 2023 at 5:06 PM Leonard Mada via R-help <r-help using r-project.org>
wrote:

> Dear R-List Members,
>
> I am looking for collaborators to further develop the BioShapes
> almost-package. I added a brief description below.
>
> A.) BioShapes (Almost-) Package
>
> The aim of the BioShapes quasi-package is to facilitate the generation
> of graphical objects resembling biological and chemical entities,
> enabling the construction of diagrams based on these objects. It
> currently includes functions to generate diagrams depicting viral
> particles, liposomes, double helix / DNA strands, various cell types
> (like neurons, brush-border cells and duct cells), Ig-domains, as well
> as more basic shapes.
>
> It should offer researchers in the field of biological and chemical
> sciences a tool to easily generate diagrams depicting the studied
> biological processes.
>
> The package lacks a proper documentation and is not yet released on
> CRAN. However, it is available on GitHub:
> https://github.com/discoleo/BioShapes
>
> Although there are 27 unique cloners on GitHub, I am still looking for
> contributors and collaborators. I would appreciate any collaborations to
> develop it further. I can be contacted both by email and on GitHub.
>
>
> B.) Documentation Tools
>
> Is there a succinct, but sufficiently informative description of
> documentation tools?
> I find that including the documentation in the source files is very
> distracting. I would prefer to have only basic comments in the source
> files and an expanded documentation in a separate location.
>
> This question may be more appropriate for the R-package-devel list. I
> can move the 2nd question to that list.
>
> ###
>
> As the biological sciences are very vast, I would be very happy for
> collaborators on the development of this package. Examples with existing
> shapes are available in (but are unfortunately not documented):
>
> Man/examples/Examples.Man.R
> R/Examples.R
> R/Examples.Cells.R
> tests/experimental/*
>
>
> Many thanks,
>
> Leonard
>
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