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Old 04-11-2015, 03:39 AM   #4
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Location: East Coast USA

Join Date: Feb 2008
Posts: 7,076

1. What format are your blast results in (html, xml, text)? You may be able to parse that result file if all you want to know is how many sequences hit a "virus".

2. If you did the blast locally do you have a sequence file with all "virus" sequences available? You will be able to use that file as an input for bowtie2 and follow the path @Michael.Ante suggested.

3. Are you comfortable using command line (e.g. linux) applications?
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