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zAlign README
-------------
[ See INSTALL for instructions on how to compile and install zAlign. ]
zAlign is a GPLv3-licensed local sequence aligner, especially intended for use
with large biological sequences ("large" meaning >3Mpb, or millions of pairs of
bases). It uses exact algorithms and linear affine gap cost functions to perform
this task.
It can be used both in standalone environments ('zalign' executable) and in
distributed environments ('mpialign' executable) -- like clusters, for example.
zAlign has been tested successfully on Linux and Solaris x86, using Open MPI and
MPICH-1 implementations. We're working on ports for other Unix-like
environments.
The program was originally developed by Rodolfo Bezerra Batista in his master's
thesis as a student of the Department of Computer Science (CIC), University of
BrasÃlia (UnB), Brazil. Later improvements were made by Felipe Scarel and Lavir
Souza, both undergraduate students from the same university. The project is
currently maintained by these three developers.
The zAlign project is situated at Launchpad.net, the Open Source development
center maintained by Canonical (yep, the same one from Ubuntu). If you have any
questions or want to help out, make sure you visit our development page at
http://launchpad.net/zalign .
Best regards,
zAlign Team.
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