Re: ensembl_57-7_amd64.changes ACCEPTED into experimental
On Fri, Apr 01, 2011 at 03:44:07PM +0100, William Spooner wrote:
> Sadly SSAHA2 uses crossmatch, which is non-free,
I have no idea about crossmatch but I'm always a fan of simply asking
whether something could be relased under a free license or not. As long
as nobody asks the authors will not considering to release. So has
somebody just asked? (I'm sorry if this question is quite naive - but I
had about 25-30% success when just trying ...)
> meaning SSAHA2 is not appropriate for debian-med. I can get you the source for ssaha, but it's so old now that I doubt anyone would still want to use it.
I know where to find this source and we just agreed here that plain old
ssaha is not worth spending much time into it.
> The latest tool from the same group is called SMALT - this is probably worth perusing. I believe that it uses the same k-mer index table algorithm as SSAHA (and BLAT); i.e. is a different algorithm to the Burrows-Wheeler tools that are so popular in the short-read world.
>
> http://www.sanger.ac.uk/resources/software/smalt/
Just added to the tasks file - thanks for the hint
Andreas.
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http://fam-tille.de
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