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Old 11-09-2010, 08:26 AM   #1
Junior Member
Location: Copenhagen, DK

Join Date: Nov 2010
Posts: 6
Post Hi SEQanswers Community

A couple of years ago I was invited to test a newly acquired Illumina GA II with some simple samples. Some uncharacterized E. coli mutants seemed ideal. Standing there with sequences and asking for the program to analyze them the reality dimmed for me - it was before even MAQ was available. I wrote some scripts in PERL that by chance proved to be very efficient in detecting more complicated indels on top of simple SNP’s and small indels. The scripts takes you from your sequence reads to final call of deviations from a reference sequence. The scripts have just been put online at:
Comments will be appreciated,
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