Release Notes: This release includes general-purpose sequence data storage in BioSQL sequence databases (read and write), adds the missing Blast2Html demo, and includes various documentation fixes.
Release Notes: BioJava 1.2 includes considerable enhancements to the parsers for Blast output and sequence file formats. There's also an improved dynamic programming package, which can compile Hidden Markov Models to Java bytecode, and support for the Distributed Annotation System 1.00.
Release Notes: Pluggable I/O framework for sequence data, parsers for Blast and FASTA output, support for assembly of biological sequences, and a pervasive event model for change notification and veto.
Release Notes: Some bugs were fixed with compiling with javac 1.3 and JBuilder. Support for longer description lines in FASTA files was added. SimpleDistributions can now be trained properly.
Release Notes: Initial release.