Protein multiple alignment by sequence annealing
AMAP is a command line tool to perform multiple alignment of peptidic
sequences. It utilizes posterior decoding, and a sequence-annealing
alignment, instead of the traditional progressive alignment method. It is
the only alignment program that allows one to control the sensitivity /
specificity tradeoff. It is based on the ProbCons source code, but
uses alignment metric accuracy and eliminates the consistency
The java visualisation tool of AMAP 2.2 is not yet packaged in Debian.
See http://baboon.math.berkeley.edu/amap/ for more information.
To build the AMAP alignment code change to the 'align' directory and type:
This distribution includes the compiled AmapDisplay.jar file.
In case you want to build the AmapDisplay from the source code,
you'll need ant (http://ant.apache.org) installed.
Once ant is installed change to the 'display' dire
amap for Debian
Please note that the previous upstream homepage
vanished and there is no information left about further updates
of this program.
The version hosted at
is older than the Debian packaged version.
If you have any knowledge about new location of the code, please
drop a note to the address b
amap-align (2.0-2) unstable; urgency=low
* Previous versions of the package amap-align were shipping the program
under a binary name (amap-align) which differed from the original one
(amap) because there was already an amap program in Debian. Since this
program has been removed from the Etch distribution, amap-align now
provides its function through the program /usr/bin/align. T
AMAP(1) User Manual AMAP(1)
amap - Protein m
amap-align (2.2-3) unstable; urgency=low
* Standards-Version: 3.9.2 (no changes needed)
Browse inside amap-align_2.2-3_ia64.deb
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