Dear galaxy users,
We have done deep sequencing on some known genomic loci
using Hiseq2000. I have already mapped the reads to the
reference sequences by using Galaxy. In the next step, I want to
find SNPs and calculate the SNP percentage within the reads.
There are 500,000 to 1,000,000 reads per biological sample. Can
I do it with galaxy? If not, is there other programs available
in windows? Considering that I am not very familiar with
programming.
Thanks,
Xiefan
University of Florida
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