Package org.biojava.bio.program

package org.biojava.bio.program

Java wrappers for interacting with external bioinformatics tools.

Related Packages

Package	Description
org.biojava.bio	The core classes that will be used throughout the bio packages.
org.biojava.bio.program.blast2html	Code for generating HTML reports from blast output
org.biojava.bio.program.formats	Experimental parsers using the tagvalue framework.
org.biojava.bio.program.gff	GFF manipulation.
org.biojava.bio.program.gff3	Support for reading and writing GFF3.
org.biojava.bio.program.hmmer	Tools for working with profile Hidden Markov Models from the HMMer package.
org.biojava.bio.program.homologene	Support classes for Homologene data.
org.biojava.bio.program.indexdb	A flat-file ascii index of ascii flat files as per the OBDA specification.
org.biojava.bio.program.phred	Parser for Phred output
org.biojava.bio.program.ssaha	SSAHA sequence searching API.
org.biojava.bio.program.ssbind
org.biojava.bio.program.tagvalue	Process files as streams of records, each with tags with values.
org.biojava.bio.program.unigene	Objects for representing Unigene clusters.
org.biojava.bio.program.xff	Event-driven parsing system for the Extensible Feature Format (XFF).
org.biojava.bio.program.xml	Utility classes for the org.biojava.bio.program.sax package.

Classes

Class	Description
Meme	The results of a meme run.