org.expasy.mzjava.proteomics.io.ms.ident

Interface PsmReader

All Known Implementing Classes:

AbstractPsmCsvReader, MaxQuantPsmReader, MODaPsmReader, MzIdentMlReader, PepXmlReader, ProteinPilotPsmReader

public interface PsmReader

A Peptide spectrum match (PSM) reader. The user of this interface has precise control over read PSMs with a PSMReaderCallback implementation.

Version:

sqrt -1

Author:

Oliver Horlacher

Method Summary

Methods

Modifier and Type	Method and Description
void	parse(File file, PSMReaderCallback callback) Parse file and call back PSMReaderCallback on each found PSM
void	parse(InputStream inputStream, PSMReaderCallback callback) Parse inputStream and call back PSMReaderCallback on each found PSM
void	parse(Reader reader, PSMReaderCallback callback) Parse reader and call back PSMReaderCallback on each found PSM

Method Detail

parse

void parse(File file,
         PSMReaderCallback callback)

Parse file and call back PSMReaderCallback on each found PSM

Parameters:

file - input file

callback - a PSMReaderCallback implementation

parse

void parse(InputStream inputStream,
         PSMReaderCallback callback)

Parse inputStream and call back PSMReaderCallback on each found PSM

Parameters:

inputStream - input stream

callback - a PSMReaderCallback implementation

parse

void parse(Reader reader,
         PSMReaderCallback callback)

Parse reader and call back PSMReaderCallback on each found PSM

Parameters:

reader - input stream

callback - a PSMReaderCallback implementation