Package: wnpp Severity: wishlist Owner: andr...@an3as.eu * Package name : abacas Version : 1.3.1 Upstream Author : Wellcome Trust Sanger Institute * URL : http://abacas.sourceforge.net/ * License : GPL Programming Lang: Perl Description : Algorithm Based Automatic Contiguation of Assembled Sequences ABACAS is intended to rapidly contiguate (align, order, orientate), visualize and design primers to close gaps on shotgun assembled contigs based on a reference sequence. . ABACAS uses MUMmer to find alignment positions and identify syntenies of assembled contigs against the reference. The output is then processed to generate a pseudomolecule taking overlapping contigs and gaps in to account. ABACAS generates a comparision file that can be used to visualize ordered and oriented contigs in ACT. Synteny is represented by red bars where colour intensity decreases with lower values of percent identity between comparable blocks. Information on contigs such as the orientation, percent identity, coverage and overlap with other contigs can also be visualized by loading the outputted feature file on ACT.
The packaging will be done in the Debian Med team and is available in SVN at Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/abacas/trunk/ -- System Information: Debian Release: squeeze/sid APT prefers oldstable APT policy: (500, 'oldstable'), (50, 'unstable') Architecture: i386 (i686) -- To UNSUBSCRIBE, email to debian-devel-requ...@lists.debian.org with a subject of "unsubscribe". Trouble? Contact listmas...@lists.debian.org Archive: http://lists.debian.org/20110321092521.24386.9506.report...@mail.an3as.eu
