converting data matrix to Affybatch object
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@pavel-goldstein-4502
Last seen 6.8 years ago
Hello everyone, I want to try PCA-based gene filter from pvac package. For this purpose I need to covert my data (matrix) to Affybatch object. I have found only ReadAffy function that doing with Cel files. Can anyone help me? Thanks, Pavel [[alternative HTML version deleted]]
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@james-w-macdonald-5106
Last seen 3 days ago
United States
Hi Pavel, On 6/17/2011 1:36 PM, Pavel Goldstein wrote: > Hello everyone, > > I want to try PCA-based gene filter from pvac package. > For this purpose I need to covert my data (matrix) to Affybatch object. > I have found only ReadAffy function that doing with Cel files. The pvac package is specifically designed to use raw Affymetrix data. You don't say what your data matrix consists of, but I assume you don't have raw Affy data. In which case this package isn't likely to be useful to you. Best, Jim > Can anyone help me? > > Thanks, > > Pavel > > [[alternative HTML version deleted]] > > _______________________________________________ > 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 -- James W. MacDonald, M.S. Biostatistician Douglas Lab University of Michigan Department of Human Genetics 5912 Buhl 1241 E. Catherine St. Ann Arbor MI 48109-5618 734-615-7826 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues
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James, thank you for the answer. I have microarray data expressionsXsamples. Do you have another solution? Pavel On Fri, Jun 17, 2011 at 10:18 PM, James W. MacDonald <jmacdon@med.umich.edu>wrote: > Hi Pavel, > > > On 6/17/2011 1:36 PM, Pavel Goldstein wrote: > >> Hello everyone, >> >> I want to try PCA-based gene filter from pvac package. >> For this purpose I need to covert my data (matrix) to Affybatch object. >> I have found only ReadAffy function that doing with Cel files. >> > > The pvac package is specifically designed to use raw Affymetrix data. You > don't say what your data matrix consists of, but I assume you don't have raw > Affy data. In which case this package isn't likely to be useful to you. > > Best, > > Jim > > > Can anyone help me? >> >> Thanks, >> >> Pavel >> >> [[alternative HTML version deleted]] >> >> ______________________________**_________________ >> Bioconductor mailing list >> Bioconductor@r-project.org >> https://stat.ethz.ch/mailman/**listinfo/bioconductor<https: stat.e="" thz.ch="" mailman="" listinfo="" bioconductor=""> >> Search the archives: http://news.gmane.org/gmane.** >> science.biology.informatics.**conductor<http: news.gmane.org="" gmane="" .science.biology.informatics.conductor=""> >> > > -- > James W. MacDonald, M.S. > Biostatistician > Douglas Lab > University of Michigan > Department of Human Genetics > 5912 Buhl > 1241 E. Catherine St. > Ann Arbor MI 48109-5618 > 734-615-7826 > ************************************************************ > Electronic Mail is not secure, may not be read every day, and should not be > used for urgent or sensitive issues > [[alternative HTML version deleted]]
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