On 30/05/13 05:22 PM, David Eccles (gringer) wrote: > On 31 May 2013 05:09, Sébastien Boisvert <[email protected]> > wrote: >>> what would you consider the longest read length which could be usable as >>> input for RAY assembler? >>> We have both regular Illumina PE and MP reads and Moleculo long reads for a >>> 1.5 Gb plant genome. >>> Since the Moleculo data have seem to have some biases against specific >>> repeats a mere overlap assembly does >>> not help too much. >> The maximum read length accepted by Ray is 65536 nucleotides. > > But bear in mind that the kmer length (rather than read length) is > more likely to be an issue here with large repeat structures. > > - David >
That's my thought too. And k-mers can not be that large because of sequencing errors obviously. ------------------------------------------------------------------------------ Get 100% visibility into Java/.NET code with AppDynamics Lite It's a free troubleshooting tool designed for production Get down to code-level detail for bottlenecks, with <2% overhead. Download for free and get started troubleshooting in minutes. http://p.sf.net/sfu/appdyn_d2d_ap2 _______________________________________________ Denovoassembler-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
