[BioC] automatic data package maker

Tomas Radivoyevitch radivot at hal.epbi.cwru.edu
Fri Dec 10 22:36:05 CET 2004

Doing this manually has been taking me 1 to 2 hours a pop.

Related to your question, a few weeks ago I tried to post the two questions 
below. Regarding the second of these and your question, perhaps the solution 
is to simply get everyone into the habit of making R data packages and 
sending them up to Bioconductor. It would be nice if manuscripts started 
coming with R scripts as "additional files" so that figures could be 
reproduced, and having the corresponding datasets up at bioconductor as R 
packages would certainly help.

Q1:   Does anyone have an automatic approach to grabbing GEO soft files and 
making esets out of them?

Q2:   Regarding R Data packages as an alternative to grabbing things from 
GEO, can anyone explain why there are so few (if any) GEO datasets also up 
at Bioconductor? I'm wondering if there's some sort of legal hindrance going 
on, or if it's just the leg work that's missing.

----- Original Message ----- 
From: "Rafael A. Irizarry" <ririzarr at jhsph.edu>
To: <bioconductor at stat.math.ethz.ch>
Sent: Friday, December 10, 2004 2:58 PM
Subject: [BioC] automatic data package maker

> hi!
> is there a utility to automatically create a data package?
> if not, im making one cause i have tons of rdas lying around that i want
> to load using library instead of load.
> it will take as input the location of an rda, location to save the
> package, package title, package author, and text describing the data
> (for the Rd file) and create a package for that data set.
> any auxiliary untility that i should be using?
> -r
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> Bioconductor at stat.math.ethz.ch
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