[BioC] How to open the edgeR Users Guide within R?

Gordon K Smyth smyth at wehi.EDU.AU
Wed May 23 03:13:34 CEST 2012

Dear Cei,

Thanks for pointing out the changed behaviour of openVignette().

You're not missing anything obvious I think.  In R for Windows, there's a 
drop-down menu item for the edgeR User's Guide.  In Unix or Mac, however, 
the easiest way is following the html package help starting from 
help.start(), and that requires quite a few clicks to get to it.

So I've just now committed through a new function


to the release version of edgeR, which will work just like the 
corresponding function in limma.  If you wait a day or two for Biconductor 
to rebuild the package, you get the new function when you reinstall edgeR.

Best wishes

> Date: Mon, 21 May 2012 23:39:46 -0500
> From: Cei Abreu-Goodger <cei at langebio.cinvestav.mx>
> To: bioconductor at r-project.org
> Subject: [BioC] How to open the edgeR Users Guide within R?
> Dear all,
> In previous versions of R/BioC I was able to access the edgeR Users
> Guide from within R using the openVignette() function. Now this points
> to a brief vignette which only says that you see the edgeR User's Guide,
> but unlike the limmaUsersGuide() convenience function, edgeR doesn't
> provide one. I can copy this function and edit it of course, but I
> wanted to ask if I missing something obvious? It was nice to be able to
> quickly consult the Users Guide from within any R session.
> sessionInfo()
> R version 2.15.0 (2012-03-30)
> Platform: x86_64-apple-darwin9.8.0/x86_64 (64-bit)
> locale:
> [1] C/UTF-8/C/C/C/C
> attached base packages:
> [1] grDevices datasets  stats     graphics  utils     methods   base
> other attached packages:
> [1] edgeR_2.6.3         limma_3.12.0        Biobase_2.16.0
> BiocGenerics_0.2.0  BiocInstaller_1.4.4
> Cheers,
> Cei
> -- 
> Dr. Cei Abreu-Goodger
> Langebio CINVESTAV
> Tel: (52) 462 166 3006
> cei at langebio.cinvestav.mx
> --

The information in this email is confidential and intend...{{dropped:4}}

More information about the Bioconductor mailing list