Uses of Class
org.biojava.bio.BioException

Packages that use BioException
Package
Description
Classes to generate and describe sequence alignments.
Databases of generic structured data (annotation) objects.
Interfaces and classes for chromatogram data, as produced by DNA sequencing equipment.
Probability distributions over Alphabets.
HMM and Dynamic Programming Algorithms.
 
 
Graphical interfaces for biojava objects.
The classes and interfaces in this package cover common molecular biological techniques such as restriction digests and PCR.
Experimental parsers using the tagvalue framework.
GFF manipulation.
Support for reading and writing GFF3.
Support classes for Homologene data.
A flat-file ascii index of ascii flat files as per the OBDA specification.
Parser for Phred output
Parsers for the XML output from NCBI blast.
SSAHA sequence searching API.
Creation of objects from SAX events using the BioJava BlastLikeDataSetCollection DTD.
Objects for representing Unigene clusters.
Event-driven parsing system for the Extensible Feature Format (XFF).
Utilities to aid in performing various physical analysis of proteins.
Classes and interfaces to load Amino Acid Index database files.
Interfaces and classes for representing sequence similarity search results.
Classes and interfaces for defining biological sequences and informatics objects.
Collections of biological sequence data.
Client for the OBDA BioFetch protocol.
General purpose Sequence storage in a relational database.
Support for OBDA flatfile databases.
Sequences and SequenceDBs which are composed from data taken from a number of data sources.
The classes and interfaces for defining sequence similarity and honology.
Standard in-memory implementations of Sequence and Feature.
Classes and interfaces for processing and producing flat-file representations of sequences.
Code for projecting Feature objects and systematically altering their properties.
Representation of the Symbols that make up a sequence, and locations within them.
Taxonomy object for representing species information.
Open Bio Sequence Database Access (OBDA) registry support.
 
Mathematical utility classes.
This package is used to perform regular expression searches of SymbolLists defined in arbitrary Alphabets.
 
Classes to represent biological entities and their relationships.
This package contains the interfaces that need to be implemented by discrete alignment services.
This package holds implementations of the org.biojava3.ws.alignment interfaces for the NCBI remote QBlast services through the WWW.
Interactions between biojavax objects and a DB.
Interface between biojava and biosql databases
Interfaces to NCBI data.
Rich implementations of Sequences, Locations and Features.
Classes to support the I/O of RichSequence and Bioentry objects.