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05-01-2009, 04:55 AM
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#1 |
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Junior Member
Location: Denmark Join Date: May 2009
Posts: 2
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Gene expression - finding DE genes
Hi
I am working with Solexa RNAseq where I want to compare 2 classes (e.g. normal vs sick) with 3 biological samples in each (e.g. 3 patients) and find differentially expressed genes/tags between the 2 classes. Does anybody have suggestions on which test/program (preferable freeware) or online tool that I can use? Perhaps an R package? So far I have looked into SAGEBetaBin: http://www.vision.ime.usp.br/~rvencio/SAGEbetaBin/ and it seemed to be working fine a few months ago, but now I have troubles submitting. Thanks, Lene |
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05-01-2009, 04:59 AM
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#2 |
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Junior Member
Location: Edinburgh, UK Join Date: Nov 2008
Posts: 7
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hey,
you might wqant to try the "edgeR" bioconductor package. http://www.bioconductor.org/packages...tml/edgeR.html works well for me... cheers, florian |
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05-01-2009, 05:01 AM
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#3 | |
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Junior Member
Location: Denmark Join Date: May 2009
Posts: 2
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