Sequence Alignments on the WWW or FTP
Dr. Andrew G. McArthur
mcarthur at onyx.si.edu
Tue May 12 16:24:50 EST 1998
Take a look at:
D.R. Maddison, D.L. Swofford, W.P. Maddison. 1997. NEXUS: an extensible
file format for systematic information. Systematic Biology, 46(4): 590-621.
At 12:38 PM 5/12/98 -0600, you wrote:
>Dear molecualr evolutionists,
> I just went searching for pre-built multiple sequence
>alignments on which to test some phylogenetic software.
> I found quite a few sets available on the WWW
>by searching YAHOO (http://www.yahoo.com/) for
>"multiple sequence alignment". However, I did not find
>the same format at each site, and most sites provided
>text formats from which comments and annotations needed
>to be removed prior to re-formating for analysis.
> It would be a huge help, if we could all agree
>on a format (such as FASTA format) that could be saved
>and retrieved for analysis, as well as the text formats for
>human reading or printing.
> At the HIV Database, we try to provide both text
>and more machine-readable formats for our alignments.
>Is FASTA format the "industry standard" or are there reasons
>to use another format?
>|Brian T. Foley btf at t10.lanl.gov |
>|HIV Database (505) 665-1970 |
>|Los Alamos National Lab http://hiv-web.lanl.gov/index.html |
>|Los Alamos, NM 87544 U.S.A. http://www.t10.lanl.gov/~btf/home.html |
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