Hello, Yes, please see the "NGS:" tool groups. If you need some help getting oriented with Galaxy, this are some good starting places: https://main.g2.bx.psu.edu/u/james/p/exercises - RNA-seq (if data RNA) http://wiki.g2.bx.psu.edu/Learn/Screencasts - Illumina Paired Ends (if data DNA) Best, Jen Galaxy team On 4/2/12 2:29 PM, shamsher jagat wrote:

Is it possible to align FASTq reads from Illumina Hi-seq reads to human genome in Galaxy? I see only Bowtie/ I guess next question will be how different is Bowtie from BWA? I want to find out sequence variations. Thanks

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