Sébastien Boisvert

de novo genome assembly is now a challenge because of the overwhelming amount of data produced by sequencers. Ray assembles reads obtained with new sequencing technologies (Illumina, 454, SOLiD) using MPI 2.2 -- a message passing inferface standard.

Ray assembler Ray is a parallel de novo genome assembler that utilises the message-passing interface everywhere and is implemented using peer-to-peer communication. Ray is implemented using the Ray Platform, a message-passing-interface programming framework. Ray is documented in ... [More] Documentation/ (many files) MANUAL_PAGE.txt (command-line options, same as Ray -help) README.md (general) INSTALL.txt (quick installation) Solutions (all bundled in a single Product called Ray) de novo genome assembly (original Ray Technology, re-branded to géno-Ray Technology) quantification of contig abundance (con-Ray Technology) de novo transcriptome assembly (trans-Ray Technology) quantification of transcript expression (express-Ray Technology) de novo meta-genome assembly (méta-Ray Technology) quantificati [Less]

Ray Platform is a message-passing-interface programming framework. It was developped initially for the parallel Ray assembler but now can be utilised for any parallel needs. The framework provides facilities for parallel software architecture, communication, memory management, profiling ... [More] , thread pools and some structures. The main class is ComputeCore. [Less]