Hi SEQanswers Community

olesk · 11-09-2010, 08:26 AM

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: http://milne.ruc.dk/R2R/
Comments will be appreciated,
olesk

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
Hi SEQansweres community	ThoralfStange	Introductions	0	11-02-2011 04:31 AM
hey, community	oceanxie	Introductions	2	04-14-2011 06:01 PM
Hello, SEQanswers community	jdjax	Introductions	0	12-02-2010 12:21 PM
Hi there community	joematthew	Introductions	0	11-10-2010 06:47 AM
Hello community!	Susanne	Introductions	0	08-25-2009 07:32 AM

11-09-2010, 08:26 AM	#1
olesk Junior Member Location: Copenhagen, DK Join Date: Nov 2010 Posts: 6	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: http://milne.ruc.dk/R2R/ Comments will be appreciated, olesk