[BioC] Aligned RNA-seq data to ranked list of genes

[Wolfgang Huber]

Paul

a relatively lightweight and reasonably fast possibility is described 
here: http://www-huber.embl.de/users/anders/HTSeq/doc/tour.html#tour

	Best wishes
	Wolfgang



Kasper Daniel Hansen scripsit 25/05/10 18:26:
> One possibility is Genominator which uses an SQLite backend for
> storing the data and does require a bit of time in setting up the
> data, but you can also do a pipeline entirely in R using
> IRanges/GenomicRanges and ShortRead.
>
> Kasper
>
> On Tue, May 25, 2010 at 11:22 AM,<paulig2001 at yahoo.co.uk>  wrote:
>> Hello,
>>
>> I've got aligned rna-seq data (aligned using MAQ) for a sample and want to turn it into a list of genes ranked by their expression level in that sample. I'm wondering if anybody can point me towards a tutorial or a package that would allow me to do this?
>>
>> Thanks a bunch.
>>
>> Paul
>>
>>
>>
>>
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>>
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-- 


Wolfgang Huber
EMBL
http://www.embl.de/research/units/genome_biology/huber