>>> On 12/1/2009 at 3:46 PM, in message <[email protected]>, Ryan >>> Golhar <[email protected]> wrote: I think virtually every man and his dog who has done anything with Illumina reads has a variety of perl scripts that do this. It depends how you want to do the trimming. Do you want to clip to a specific length, clip on quality (absolute or average over a window) and do you have a minimum length requirement?
Do you want to clip 3' and 5' ends or just one? ..d Michael, Doesn't Illumina provide tools to do this? I know with ABI Solid data, they have a perl script capable of trimming data based on quality scores. Ryan michael watson (IAH-C) wrote: > Hi > > I'm sorry if I've not been keeping up to date on what is doubtless a hot > topic. > > Does EMBOSS allow one to trim short reads based on quality data (from a fastq > file)? > > If not, I have read that it is planned - any idea when it will be implemented? > > Otherwise, alternative suggestions are welcome! > David Martin PhD College of Life Sciences University of Dundee The University of Dundee is a Scottish Registered Charity, No. SC015096. The University of Dundee is a registered Scottish charity, No: SC015096 _______________________________________________ EMBOSS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/emboss
