Uses of Package
org.biojava.nbio.core.sequence.io

Packages that use org.biojava.nbio.core.sequence.io

Package	Description
org.biojava.nbio.core.sequence.io
org.biojava.nbio.core.sequence.loader
org.biojava.nbio.structure.io	Input and Output of Structures

Classes in org.biojava.nbio.core.sequence.io used by org.biojava.nbio.core.sequence.io

Class	Description
FastaStreamer	Read from a FASTA file (or gzipped FASTA file) and create a Java stream of ProteinSequence objects for use in a functional programming paradigm.
GenericGenbankHeaderParser
GenericInsdcHeaderFormat
IUPACParser	Available translations 1 - UNIVERSAL 2 - VERTEBRATE_MITOCHONDRIAL 3 - YEAST_MITOCHONDRIAL 4 - MOLD_MITOCHONDRIAL 5 - INVERTEBRATE_MITOCHONDRIAL 6 - CILIATE_NUCLEAR 9 - ECHINODERM_MITOCHONDRIAL 10 - EUPLOTID_NUCLEAR 11 - BACTERIAL 12 - ALTERNATIVE_YEAST_NUCLEAR 13 - ASCIDIAN_MITOCHONDRIAL 14 - FLATWORM_MITOCHONDRIAL 15 - BLEPHARISMA_MACRONUCLEAR 16 - 2CHLOROPHYCEAN_MITOCHONDRIAL 21 - TREMATODE_MITOCHONDRIAL 23 - SCENEDESMUS_MITOCHONDRIAL Taken from NCBI with slight modification and put into the classpath resource.
IUPACParser.IUPACTable	Holds the concept of a codon table from the IUPAC format
ProteinSequenceCreator	Used to create a ProteinSequence from a String to allow for details about the location of the sequence etc.

Classes in org.biojava.nbio.core.sequence.io used by org.biojava.nbio.core.sequence.loader

Class	Description
GenericGenbankHeaderParser

Classes in org.biojava.nbio.core.sequence.io used by org.biojava.nbio.structure.io

Class	Description
FastaReader	Use FastaReaderHelper as an example of how to use this class where FastaReaderHelper should be the primary class used to read Fasta files