From owner-bionews@hgmp.mrc.ac.uk Thu May 17 19:40:50 2001 Return-Path: Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 3A3D817B58 for ; Thu, 17 May 2001 19:40:42 +0100 (BST) Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 7819317B10 for ; Thu, 17 May 2001 19:40:28 +0100 (BST) Received: by mercury.hgmp.mrc.ac.uk (Postfix, from userid 6022) id 1F33517B04; Thu, 17 May 2001 19:40:05 +0100 (BST) Received: from localhost (localhost [127.0.0.1]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id 9310717B00 for ; Thu, 17 May 2001 17:06:09 +0100 (BST) Received: from mailbox4.ucsd.edu (mailbox4.ucsd.edu [132.239.1.56]) by mercury.hgmp.mrc.ac.uk (Postfix) with ESMTP id DD6DB17ADA for ; Thu, 17 May 2001 17:05:53 +0100 (BST) Received: from mail.fu-berlin.de (mail.fu-berlin.de [160.45.11.165]) by mailbox4.ucsd.edu (8.10.1/8.11.0) with ESMTP id f4HG5qg12771 for ; Thu, 17 May 2001 09:05:52 -0700 (PDT) Received: by mail.fu-berlin.de (Smail3.2.0.98) from Curry.ZEDAT.FU-Berlin.DE (160.45.10.36) with esmtp id ; Thu, 17 May 2001 18:05:51 +0200 (MEST) Received: by Curry.ZEDAT.FU-Berlin.DE (Smail3.2.0.98) from news.fu-berlin.de with bsmtp id ; Thu, 17 May 2001 18:05:50 +0200 (MEST) To: bionet-announce@moderators.isc.org From: Jens Stoye Subject: New Release of ROSE - Random-model Of Sequence Evolution X-Orig-NNTP-Posting-Host: harry.molgen.mpg.de (141.14.16.6) Mime-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII X-Orig-X-Trace: fu-berlin.de 990115548 429551 141.14.16.6 (16 812) X-Orig-Path: harry.molgen.mpg.de!stoye Newsgroups: bionet.announce Message-Id: <20010517184005.1F33517B04@mercury.hgmp.mrc.ac.uk> Date: Thu, 17 May 2001 19:40:05 +0100 (BST) Sender: owner-bionews@hgmp.mrc.ac.uk Precedence: bulk New Release of ROSE - Random-model Of Sequence Evolution We are pleased to announce that release 1.2 of Rose is now available on the Bielefeld Bioinformatics Server. Rose implements probabilistic models of RNA, DNA, and protein sequence evolution via insertions, deletions and substitutions. The source code is published under the GPL. New Features: - Standard DNA evolution models (JC, HKY, F81, F84, K2P) - multiple runs, single invocation - FASTA or PHYLIP output formats Rose Copyright (c) 1997-2001 University of Bielefeld, Germany and Deutsches Krebsforschungszentrum (DKFZ) Heidelberg, Germany. Rose 1.2 Website http://bibiserv.TechFak.Uni-Bielefeld.DE/rose/ Rose 1.2 Download http://BiBiServ.TechFak.Uni-Bielefeld.DE/ cgi-bin/bibi_download?tool=rose&version=1.2 Authors Jens Stoye (1), Dirk Evers (2), Folker Meyer (3) (1) Max Planck Institute (MPI) for Molecular Genetics, Computational Molecular Biology, Berlin, Germany; (2) Faculty of Technology, University of Bielefeld, Germany; (3) Center for Genome Research, University of Bielefeld, Germany About Rose: Guided by an evolutionary tree, a family of related sequences is created from a common ancestor sequence by insertion, deletion and substitution of characters. During this artificial evolutionary process, the `true' history is logged and the `correct' multiple sequence alignment is created simultaneously. The model also allows for varying rates of mutation within the sequences, making it possible to establish so-called sequence motifs. The data created by Rose are suitable for the evaluation of methods in multiple sequence alignment computation and the prediction of phylogenetic relationships. It can also be useful when teaching courses in or developing models of sequence evolution and in the study of evolutionary processes. -------------------------------------------------------------------------- Jens Stoye phone: +49-30-8413-1352 Max Planck Institute for Molecular Genetics fax: +49-30-8413-1152 Computational Molecular Biology Ihnestr. 73 14195 Berlin stoye@molgen.mpg.de Germany http://www.dkfz.de/tbi/people/stoye/ -------------------------------------------------------------------------- .