Multiple alignment software

Steven Smith smith at mito.harvard.edu
Tue Jun 25 14:37:41 EST 1991

The Genetic Data Environment (GDE) is now available via anonymous ftp
to golgi.harvard.edu.  The GDE is a set of programs for multiple sequence
alignment and analysis. The GDE currently runs on SUN SparcStations using
OpenWindows 2.0 or MIT X11R4.  The programs use an expandable user interface
which allows the addition of external analysis functions without any rewriting
of code.  Analysis functions can be written in any language ('C',Fortran, PascalBasic, shell scripts), and can be seamlessly merged into the systems menu/
dialog box interface.

The system supports several data types, nucleic and amino acid sequences,
text, and masking sequence, and three forms of color highlighting.  The system
can handle enormous alignments limited only by the amount of virtual memory
on your workstation.

Sequences can be edited under several levels of protection, as well
as by aligned groups.  The system has several external analysis
functions included for such things as automated alignment, searching,
homology recognition, and phylogenetic analysis.

The programs are not in the public domain, but are and will continue to be
available for free.  Distribution includes full source code, and binaries
along with a users manual.

Steven Smith
Director of Computation
Harvard Genome Lab
smith at nucleus.harvard.edu

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