Package: wnpp Severity: wishlist Owner: Andreas Tille <ti...@debian.org>
* Package name : smalt Version : 0.7.6 Upstream Author : Hannes Ponstingl <h...@sanger.ac.uk> * URL : http://www.sanger.ac.uk/resources/software/smalt/ * License : GPL Programming Lang: C Description : Sequence Mapping and Alignment Tool SMALT efficiently aligns DNA sequencing reads with a reference genome. It Reads from a wide range of sequencing platforms, for example Illumina, Roche-454, Ion Torrent, PacBio or ABI-Sanger, can be processed including paired reads. . The software employs a perfect hash index of short words (< 20 nucleotides long), sampled at equidistant steps along the genomic reference sequences. . For each read, potentially matching segments in the reference are identified from seed matches in the index and subsequently aligned with the read using a banded Smith-Waterman algorithm. . The best gapped alignments of each read is reported including a score for the reliability of the best mapping. The user can adjust the trade-off between sensitivity and speed by tuning the length and spacing of the hashed words. . A mode for the detection of split (chimeric) reads is provided. Multi-threaded program execution is supported. This package is maintained by Debian Med team at Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/smalt/trunk/ -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: https://lists.debian.org/20140416173023.6317.62486.report...@mail.an3as.eu
