Hello, With the recent upgrade to CASAVA 1.8, Illumina's FASTQ files now contain both filtered and non-filtered reads (i.e. high and low quality reads, what used to be called "reads that passed filtering").
Here's a program (+galaxy wrapper) that can filter those FASTQ files, preparing them for the down-stream genome mapping programs (Probably a temporary fix until mapping programs add a feature to ignore those reads). http://cancan.cshl.edu/labmembers/gordon/fastq_illumina_filter/ Comments are welcomed, -gordon ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
