Hello Shalabh, BWA is a good choice for longer reads, if they are DNA. If you have RNA data, then you might want to consider a tool like BLAT or BLAST (is wrapped for Galaxy in the Tool Shed). To use BLAST in Galaxy, you will need a local or cloud instance, as explained here: http://getgalaxy.org http://galaxyproject.org/wiki/Tool%20Shed Hopefully this helps, Jen Galaxy team On 10/3/11 7:50 AM, Shalabh Sharma wrote:
Hi, I am new to mapping. I have reads ranging from 150-300bp, i am not sure which is the best suitable program for that in Galaxy. I already tried bwa but i am not sure if thats the best choice for long reads.
Thanks Shalabh
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