On Mon, Apr 10, 2006 at 10:04:17AM +0900, Charles Plessy wrote : > In the meantime, here is a patch for microbio.wml which adds Dialign > (ITP) and Muscle (in main), and moves TreeView X in the "unofficial debs > available" section.
Sorry for the patchless mail... -- Charles
--- microbio.wml_old 2006-04-10 09:55:00.000000000 +0900 +++ microbio.wml 2006-04-10 09:57:18.000000000 +0900 @@ -265,6 +265,16 @@ </ul> </project> +<project name="Muscle" + url="http://www.drive5.com/muscle/"; + license="Public Domain" + deb="http://packages.debian.org/unstable/science/muscle";> + MUSCLE is a multiple alignment program for protein sequences. MUSCLE + stands for multiple sequence comparison by log-expectation. In the + authors tests, MUSCLE achieved the highest scores of all tested + programs on several alignment accuracy benchmarks, and is also one of + the fastest programs out there. +</project> <project name="NJplot" url="http://pbil.univ-lyon1.fr/software/njplot.html"; @@ -648,6 +658,16 @@ expenditure. </project> +<project name="TreeView X" + url="http://darwin.zoology.gla.ac.uk/~rpage/treeviewx/"; + license="GPL" + deb="http://mentors.debian.net/debian/pool/main/t/treeviewx/";> + TreeView X is a program to display phylogenetic trees on Linux and Unix + platforms. It can read and display NEXUS and Newick format tree files + (such as those output by PAUP*, ClustalX, TREE-PUZZLE, and other + programs). +</project> + ###################################################################### ## Not available as a Debian package @@ -677,6 +697,16 @@ </p> </project> +<project name="Dialign" + url="http://dialign.gobics.de/"; + licence="LGPL"> + DIALIGN2 is a command line tool to perform multiple alignment of + protein or DNA sequences. It constructs alignments from gapfree pairs + of similar segments of the sequences. This scoring scheme for + alignments is the basic difference between DIALIGN and other global or + local alignment methods. Note that DIALIGN does not employ any kind of + gap penalty. +</project> <project name="Genographer" url="http://hordeum.oscs.montana.edu/genographer/"; @@ -723,11 +753,3 @@ </project> -<project name="TreeView" - url="http://darwin.zoology.gla.ac.uk/~rpage/treeviewx/"; - license="GPL"> - TreeView X is a program to display phylogenetic trees on Linux and Unix - platforms. It can read and display NEXUS and Newick format tree files - (such as those output by PAUP*, ClustalX, TREE-PUZZLE, and other - programs). -</project>
