[Bioperl-l] Bio::Prospect:: -- a Perl interface to Prospect protein
rkh at gene.com
Wed Feb 18 16:31:05 EST 2004
We're pleased to announce the first public release of Bio::Prospect::, a
Perl API for protein fold recognition with Prospect PRO. A
mini-manuscript describing the module is available at
We present Bio::Prospect::, an object-oriented Perl Application
Programming Interface (API) to the PROSPECT protein threading
application. The Bio::Prospect:: modules facilitate executing
the program, parsing the results, generating a homology model
from an alignment, preparing a model for display with RasMol,
and reconciling multiple pairwise alignments as a single
multiple sequence alignment. The Bio::Prospect:: modules provide
for local and remote execution of PROSPECT via a consistent
interface. PROSPECT results may be represented with the
full-featured Thread class or as a space-efficient distillation
of results with the ThreadSummary class; instances of both
classes may be serialized for network transmission of results
from remote execution.
LICENSE: The module is released under the Academic Free License v. 2.0
AVAILABILITY: The project is hosted on SourceForge
(http://www.sourceforge.net/projects/prospect-if/). A perl install
package is available through CPAN (http://search.cpan.org/~reece/).
Example scripts are included.
REQUIREMENTS: This module requires Prospect PRO
several other perl modules, all available from CPAN.
Comments, bug reports, patches, and code contributions are encouraged.
Reece Hart and David Cavanaugh
Reece Hart, Ph.D. rkh at gene.com, http://www.gene.com/
Genentech, Inc. 650/225-6133 (voice), -5389 (fax)
Bioinformatics and Protein Engineering
1 DNA Way, MS-93 http://www.in-machina.com/~reece/
South San Francisco, CA 94080-4990 reece at in-machina.com, GPG: 0x25EC91A0
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