On 05/22/2013 10:53 PM, Steve Lianoglou wrote: > Hi, > > On Wed, May 22, 2013 at 1:36 PM, Fiona Ingleby <fiona.ingleby at="" gmail.com=""> wrote: >> Hi everyone, >> >> Quick question: can anyone recommend tutorials/resources which are available online that I could use to get started with the basics of analysing RNA-seq data in Bioconductor? I've come across a few things (sets of lecture slides and sets of code to work through) but I just thought I would ask if anyone had found anything particularly useful? Ideally I'm wanting to focus on alignment and differential expression analysis, so I'd be grateful if anyone has any recommendations. > > Reading through the vignettes for packages built to handle these > things would be a good start, namely: > > * easyRNASeq > http://bioconductor.org/packages/2.12/bioc/vignettes/easyRNASeq/i nst/doc/easyRNASeq.pdf > > * HTSeqGene > http://bioconductor.org/packages/2.12/bioc/vignettes/HTSeqGenie/i nst/doc/HTSeqGenie.pdf > > * QuasR > http://bioconductor.org/packages/2.12/bioc/vignettes/QuasR/inst/doc /QuasR-Overview.pdf > > > HTH, > -steve > and check out the 'Sample Workflow' on the Bioconductor home page: http://www.bioconductor.org/help/workflows/high-throughput-sequencing/ also, the IIGB at UCRiverside has an excellent collection of manuals, eg: http://manuals.bioinformatics.ucr.edu/home/ht-seq#TOC-RNA-Seq-Analysis Regards, Hans-Rudolf > -- > Steve Lianoglou > Computational Biologist > Department of Bioinformatics and Computational Biology > Genentech > > _______________________________________________ > 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 >