Converting .gpr files to .csv files
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@guest-user-4897
Last seen 7.0 years ago
I just got some microarray data sent over to me. The files are .gpr and I would like to convert then to .csv files to open the data in excel and eventually in R. Im not sure how to go about doing that. -- output of sessionInfo(): R version 3.1.1 (2014-07-10) Platform: i386-w64-mingw32/i386 (32-bit) locale: [1] LC_COLLATE=English_United States.1252 [2] LC_CTYPE=English_United States.1252 [3] LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C [5] LC_TIME=English_United States.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base -- Sent via the guest posting facility at bioconductor.org.
Microarray GO convert • 1.3k views
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@james-w-macdonald-5106
Last seen 10 hours ago
United States
Hi Adriana, I know there is a temptation to want to open files using excel, but you should resist that temptation. Instead, read the limma user's guide, particularly starting on page 17. You want to read those files in using read.maimages, with source="genepix". The limma package has all the functionality necessary to read in and analyze your data, and the limma user's guide has numerous examples that should help you understand how to proceed. Best, Jim On Sep 8, 2014 8:40 PM, "Adriana Charles [guest]" <guest at="" bioconductor.org=""> wrote: > I just got some microarray data sent over to me. The files are .gpr and I > would like to convert then to .csv files to open the data in excel and > eventually in R. Im not sure how to go about doing that. > > -- output of sessionInfo(): > > R version 3.1.1 (2014-07-10) > Platform: i386-w64-mingw32/i386 (32-bit) > > locale: > [1] LC_COLLATE=English_United States.1252 > [2] LC_CTYPE=English_United States.1252 > [3] LC_MONETARY=English_United States.1252 > [4] LC_NUMERIC=C > [5] LC_TIME=English_United States.1252 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > -- > Sent via the guest posting facility at bioconductor.org. > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > [[alternative HTML version deleted]]
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