Others

Contact: Marília Braga and Marie-France Sagot

PSbR is an algorithm for testing the evolution and conservation of common clusters of genes.

Website: http://pbil.univ-lyon1.fr/members/sagot/htdocs/team/software/PSbR/

Contact: Marie-France Sagot

Cravela is a framework for the identification and evaluation of pre-miRNA candidates.

Website: http://www.cravela.org/

Contact: Marie-France Sagot

Migal is a software for comparing RNA structures.

Website: http://www-igm.univ-mlv.fr/~allali/logiciels/index.en.php

Contact: Julien Allali and Marie-France Sagot

PepLine is a pipeline for the high-throughput analysis of proteomic data.

Website: http://www.grenoble.prabi.fr/protehome/software/pepline

Contact: Alain Viari

Motus is an algorithm for searching and inferring coloured motifs in undirected graphs (downloable version – offers different functionalities from the web-based version).

Website: http://pbil.univ-lyon1.fr/software/motus/

Contact: Vincent Lacroix and Marie-France Sagot

C3P enables to merge two or more graphs representing biological data (e.g. pathways, …).

Website: http://www.inrialpes.fr/helix/people/viari/cccpart/

Contact: Alain Viari

Touché is the implementation of a linear-time delay algorithm for enumerating all directed acyclic subgraphs of a directed graph G(V,E) that have their sources and targets included in two subsets S and T of V, respectively. From these subgraphs, called pitches, the maximal ones, called stories, may be extracted in a dramatically more efficient way in relation to a previous story telling algorithm (see Gobbolino). The improvement may even increase if a pruning technique is further applied that avoids generating many pitches which have no chance to lead to a story. We experimentally demonstrate these statements by making use of a quite large dataset of real metabolic pathways and networks.

Website: http://amici.dsi.unifi.it/lasagne/?page_id=393

Contact: Paulo Vieira Milreu and Marie-France Sagot

Repseek is a software for finding approximate repeats in large DNA sequences.

Website: http://wwwabi.snv.jussieu.fr/~public/RepSeek

Contact: Guillaume Achaz and Alain Viari

SeaView is a multiplatform, graphical user interface for multiple sequence alignment and molecular phylogeny.

Website: http://pbil.univ-lyon1.fr/software/seaview.html

Contact: Manolo Gouy and Marie-France Sagot

Tuiuiu is a multiple repeat search filter with edit distance.

Website: http://mobyle.genouest.org/cgi-bin/Mobyle/portal.py?form=tuiuiu

Contact: Pierre Peterlongo and Marie-France Sagot