SeqPup, version 0.9e, October 1999
SeqPup is a biological sequence editor and analysis program. It
includes links to network services and external analysis
programs. It is usable on common computer systems that support
the Java runtime environment, including Macintosh, MS-Windows and
This release is easier to install and use.
multiple sequence alignment and single sequence editing
read and write several sequence file formats
sequence feature editing, manipulation and marking in prints
translate dna/protein, consensus, reverse/complement, and distance methods
pretty print of alignments and sequences with boxed and shaded regions
Internet Sequence Retrieval System (SRS), and NCBI-BLAST searches
User Plug-in sequence manipulations and analyses
User-definable links to external analysis programs, including
ClustalW multiple alignment, CAP contig assembly, tacg restriction map
Remote program client-server interface, using CORBA protocol
Additions to this Java release include sequence document and
feature manipulation and display, enhanced sequence file
handling, enhanced drawing/pretty print methods, including PDF
output, user-developed plug-in methods for sequence analysis and
display (Java classes), improved single-sequence editing,
improved alignment manipulations.
This application is a work in progress; it has bugs still.
Your comments are welcome. Email: seqpup at bio.indiana.edu.
Find this software at
[this update superceeds version 0.9c of september]
-- gilbertd at bio.indiana.edu