On 11/11/13 12:33 PM, JC Grenier wrote: > Hi, I'm presently testing some parameters for launching Ray on Microbiome > datasets. > > I have a question concerning the parameter for the minimum contig length. > Can you explain me why I'm getting a lot more contigs/scaffolds > 500 when > I'm putting > this parameter at 100 (default) than when I'm putting it at 500 directly? >
Only assembly seeds with at least "minimum contig length" nucleotides are accepted. In your case, the behavior you are observing is presumably due to short seeds (< 500 nt) that are extended to longer DNA sequences (> 500 nt). > Thanks a lot for your help. > > -- > Jean-Christophe Grenier, M.Sc. > > ----------------------------------------- > /Bio-informaticien/ > /Laboratoire de Philip Awadalla/ > /Laboratoire de Luis Barreiro/ > /CHU Sainte-Justine/ > //3175, Côte Sainte-Catherine, local B-607 > ///Tél : 514-345-4931 poste 5199/ > ----------------------------------------- ------------------------------------------------------------------------------ November Webinars for C, C++, Fortran Developers Accelerate application performance with scalable programming models. Explore techniques for threading, error checking, porting, and tuning. Get the most from the latest Intel processors and coprocessors. See abstracts and register http://pubads.g.doubleclick.net/gampad/clk?id=60136231&iu=/4140/ostg.clktrk _______________________________________________ Denovoassembler-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
