Is there some packages for RNA-seq data analysis?
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Jinyan Huang ▴ 190
@jinyan-huang-4157
Last seen 8.4 years ago
For RNA-seq, illumina/solex data. Thanks.
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Ido M. Tamir ▴ 320
@ido-m-tamir-1268
Last seen 8.4 years ago
On Saturday 17 July 2010 00:20:10 Jinyan Huang wrote: > For RNA-seq, illumina/solex data. specifically: http://bioconductor.org/packages/2.6/RNAseq.html and generally: http://bioconductor.org/packages/2.6/HighThroughputSequencing.html I don't know why edgeR is not in the specific list. best, ido
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Genominator, yeastRNASeq, and leeBamViews are additional packages relevant to analysis of RNA-seq experiments -- package developers/maintainers need to consider their choice of biocViews terms; better "tagging" facilities are under consideration to aid resource discovery. On Mon, Jul 19, 2010 at 4:57 AM, Ido M. Tamir <tamir at="" imp.univie.ac.at=""> wrote: > On Saturday 17 July 2010 00:20:10 Jinyan Huang wrote: >> For RNA-seq, illumina/solex data. > > specifically: > http://bioconductor.org/packages/2.6/RNAseq.html > > and generally: > http://bioconductor.org/packages/2.6/HighThroughputSequencing.html > I don't know why edgeR is not in the specific list. > > best, > ido > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >
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Hi all I have added 'RNAseq' to the biocViews for edgeR, so that it will appear in the RNAseq list when version 1.6.10 reaches biocLite() in 24-36 hours. Thanks Davis On Jul 19, 2010, at 8:23 PM, Vincent Carey wrote: > Genominator, yeastRNASeq, and leeBamViews are additional packages > relevant to analysis of RNA-seq experiments -- package > developers/maintainers need to consider their choice of biocViews > terms; better "tagging" facilities are under consideration to aid > resource discovery. > > On Mon, Jul 19, 2010 at 4:57 AM, Ido M. Tamir <tamir at="" imp.univie.ac.at=""> wrote: >> On Saturday 17 July 2010 00:20:10 Jinyan Huang wrote: >>> For RNA-seq, illumina/solex data. >> >> specifically: >> http://bioconductor.org/packages/2.6/RNAseq.html >> >> and generally: >> http://bioconductor.org/packages/2.6/HighThroughputSequencing.html >> I don't know why edgeR is not in the specific list. >> >> best, >> ido >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at stat.math.ethz.ch >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >> > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor ---------------------------------------------------------------------- -- Davis J McCarthy Research Technician Bioinformatics Division Walter and Eliza Hall Institute of Medical Research 1G Royal Parade, Parkville, Vic 3052, Australia dmccarthy at wehi.edu.au http://www.wehi.edu.au ______________________________________________________________________ The information in this email is confidential and intend...{{dropped:6}}
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