Uses of Class
com.compomics.util.experiment.io.biology.protein.Header

Packages that use Header

Package	Description
com.compomics.util.experiment.identification.protein_inference.fm_index	Protein sequence database indexing classes based on Burrows-Wheeler transform.
com.compomics.util.experiment.io.biology.protein	Experiment IO classes for biological resources.
com.compomics.util.experiment.io.biology.protein.iterators	Fasta file iterators.
com.compomics.util.nucleotide	Useful objects for modeling and handling nucleotides.
com.compomics.util.protein	Classes concerning useful Objects and their operations for modeling and handling proteins.

Uses of Header in com.compomics.util.experiment.identification.protein_inference.fm_index

Methods in com.compomics.util.experiment.identification.protein_inference.fm_index that return Header

Modifier and Type	Method	Description
Header	FMIndex.getHeader(String proteinAccession)	Returns the header corresponding to the given accession.

Uses of Header in com.compomics.util.experiment.io.biology.protein

Methods in com.compomics.util.experiment.io.biology.protein that return Header

Modifier and Type	Method	Description
static Header	Header.parseFromFASTA(String aFASTAHeader)	Factory method that constructs a Header instance based on a FASTA header line.

Uses of Header in com.compomics.util.experiment.io.biology.protein.iterators

Methods in com.compomics.util.experiment.io.biology.protein.iterators that return Header

Modifier and Type	Method	Description
Header	FastaIterator.getLastHeader()	Returns the header corresponding to the last protein.

Uses of Header in com.compomics.util.nucleotide

Methods in com.compomics.util.nucleotide that return Header

Modifier and Type	Method	Description
Header	NucleotideSequence.getHeader()	This method reports on the nucleotide header.

Methods in com.compomics.util.nucleotide with parameters of type Header

Modifier and Type	Method	Description
void	NucleotideSequence.setHeader(Header aHeader)	This method sets the header.

Constructors in com.compomics.util.nucleotide with parameters of type Header

Modifier	Constructor	Description
	NucleotideSequence(Header aHeader, NucleotideSequenceImpl aSequence)	This constructor allows the passing of a Header, as well as an AASequenceImpl for this Protein.

Uses of Header in com.compomics.util.protein

Methods in com.compomics.util.protein that return Header

Modifier and Type	Method	Description
Header	Protein.getHeader()	This method reports on the header for the current protein.

Methods in com.compomics.util.protein with parameters of type Header

Modifier and Type	Method	Description
void	Protein.setHeader(Header aHeader)	Simple setter for the header.

Constructors in com.compomics.util.protein with parameters of type Header

Modifier	Constructor	Description
	Protein(Header aHeader, AASequenceImpl aSequence)	This constructor allows the passing of a Header, as well as an AASequenceImpl for this Protein.
	Protein(Header aHeader, AASequenceImpl aSequence, boolean aTruncated, int aTruncationPosition)	This constructor allows the passing of a Header, as well as an AASequenceImpl for this Protein.