# AMAP

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> Source: https://en.wikipedia.org/wiki/AMAP
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{{Infobox Software|name=AMAP|developer=Ariel Schwartz ([UC Berkeley](/source/UC_Berkeley)), [Lior Pachter](/source/Lior_Pachter) ([UC Berkeley](/source/UC_Berkeley))|latest_release_version=2.0|operating_system=[UNIX](/source/UNIX), [Linux](/source/Linux), [Mac](/source/Apple_Macintosh)|genre=Bioinformatics tool|licence=Open source|website=[http://bio.math.berkeley.edu/amap/download/ AMAP download]}}

'''AMAP''' is a  [multiple sequence alignment](/source/multiple_sequence_alignment) program based on [sequence annealing](/source/sequence_annealing).<ref name="amap-paper">{{cite journal |last1=S. Schwartz |first1=A. |last2=Pachter |first2=L. |title=Multiple alignment by sequence annealing |journal=Bioinformatics |date=19 January 2007 |volume=23 |issue=2 |pages=e24–e29 |doi=10.1093/bioinformatics/btl311 |doi-access= }}</ref> This approach consists of building up the multiple alignment one match at a time, thereby circumventing many of the problems of progressive alignment. The AMAP parameters can be used to tune the sensitivity-specificity tradeoff.

The program can be used through the AMAP web server or as a standalone program which can be installed with the source code.

== Input/Output ==

This program accepts sequences in [FASTA format](/source/FASTA_format).

The output format includes: [FASTA format](/source/FASTA_format), [Clustal](/source/Clustal).

== References ==
{{reflist}}

== External links ==
* [https://web.archive.org/web/20061011195311/http://baboon.math.berkeley.edu/mavid/ AMAP web server]

Category:Bioinformatics software

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Adapted from the Wikipedia article [AMAP](https://en.wikipedia.org/wiki/AMAP) by Wikipedia contributors ([contributor history](https://en.wikipedia.org/wiki/AMAP?action=history)). Available under [Creative Commons Attribution-ShareAlike 4.0 International](https://creativecommons.org/licenses/by-sa/4.0/). Changes may have been made.