17 Aug
2010
17 Aug
'10
8:54 a.m.
Hi Shaun, The sacCer2 genome is annotated as SGD/S288C June 2008 at UCSC. Is this not what you are expecting/finding when doing your analysis in Galaxy NGS Mapping with sacCer2? Thanks for helping us to understand! Jen Galaxy Team On 8/17/10 5:55 AM, SHAUN WEBB wrote:
Just a word of warning to everyone. I have recently been trying to map S.Cerevisiae sequencing reads to a reference genome. The pre built index supplied by bowtie is built on the CYGD assembly and not the commonly used SGD assembly (strain S288C). I'm unsure if CYGD use a different strain or an older assembly but I have noticed differences (mainly SNPs) in the sequence files.
Shaun Webb
-- Jennifer Jackson http://usegalaxy.org