[Bioc-devel] Data Package Size Issues (.idat and .rda)

Nicolas De Jay nicolas.dejay at mail.mcgill.ca
Fri Nov 8 06:26:05 CET 2013

Thanks for the prompt answer.  The data set I am packaging closely
resembles that of minfiData except that there are 52 samples; the IDAT
files together are some 800MB whereas the Rda file is closer to 150MB.
 It is worth noting that my experiment data package will be submitted
to Bioconductor along with a software package which makes use of these
samples in the vignette.  With this in mind, can I omit the IDAT
files?  If this goes against Bioconductor's underlying design, what
would you say is the maximum size of an experiment data package?

Nicolas De Jay

On Thu, Nov 7, 2013 at 9:38 PM, Kasper Daniel Hansen
<kasperdanielhansen at gmail.com> wrote:
> To give some background: it is true that the RGsetEx object (in
> data/RGsetEx.rda) is a 1-1 correspondence with the raw data files in
> inst/extdata, so one could consider it redundant.  However, having the IDAT
> files are convenient for testing parsing, and also for other tools who want
> to have 450k example data and not want to depend on minfi.  Those are the
> two main reasons for including the raw data as well.  And then the fact that
> while the data size is "big" it is only 6 samples.
> Best,
> Kasper
> On Thu, Nov 7, 2013 at 3:58 PM, Nicolas De Jay
> <nicolas.dejay at mail.mcgill.ca> wrote:
>> Hi,
>> I am preparing a data package and using the minfiData package as a
>> reference.  The .idat files in extdata and the .rda file in data are
>> both present in both the compressed tarball source and the installed
>> copy directory (in my case, under ~/R/x86-64.../3.0/minfiData).  Isn't
>> this redundant?  Is there a way to have the prospective user only
>> download the .rda files?
>> Sorry if my question is misguided and thanks in advance for your help.
>> ---
>> Nicolas De Jay
>> M.Sc. Student
>> Department of Human Genetics
>> Montreal Children's Hospital Research Institute, McGill University Health
>> Centre
>> 4060 Ste Catherine West, PT-239
>> Montreal, QC H3Z2Z3, Canada
>> T: (514) 412-4440 | E: nicolas.dejay at mail.mcgill.ca
>> _______________________________________________
>> Bioc-devel at r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel

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