NEWS
14/09/2006: New version of the LAGAN Toolkit (2.0)
is now available from the Download page. This
version has numberous bug fixes and new features, please upgrade. The
new features are summarized in the README.first file in the Readmes
directory.
22/06/2005:
In order to provide a more flexible and reliable server for LAGAN users we have teamed
up with the VISTA server to produce the alignments
and visualizations for all requests to this server. When you click on any of the submission
links you will be redirected to special LAGAN/VISTA submission forms, where you can submit your
sequences. You will get a link with your results in an e-mail from the VISTA server. In addition to the
standard alignments and VISTA PDFs you can now use the dynamic VISTA-browser to view your alignments.
It is also no longer required that you specify the tree for Multi-LAGAN - it will be calculated
automatically, if you wish.
25/05/2004:
MLAGAN was used for
multiple alignments of human, mouse, rat and macaque genomes based on
the PASH anchoring scheme
by the BRL group at the
Baylor College of Medicine.
25/02/2004:
You can now generate LAGAN alignments through
Sockeye, a
3D comparative genome browser that provides visualization for Lagan
alignments in the context of user-defined or
EnsEMBL-imported annotation.
Sockeye is developed at the
Genome Sciences Centre, Vancouver.
LAGAN
TOOLKIT
This site was last updated
.
You can still direct any questions to the LAGAN authors
at lagan@cs.stanford.edu
The Lagan Tookit is a set of alignment programs for comparative genomics.
The three main components are a pairwise aligner (LAGAN), a multiple aligner
(M-LAGAN), and a glocal aligner (Shuffle-LAGAN). All three are based on the
CHAOS local alignment tool
and combine
speed (regions up to several megabases can be aligned in minutes) with high accuracy.
The results of the alignment can be visualized using the VISTA visualization tool.
