eu.isas.peptideshaker.export

Class UnipeptExport

java.lang.Object

eu.isas.peptideshaker.export.UnipeptExport

public class UnipeptExport
extends Object

Export peptide sequences to the Unipept web interface.

Author:

Tim Van Den Bossche, Pieter Verschaffelt, Thilo Muth, Harald Barsnes, Marc Vaudel

Constructor Summary

Constructors

Constructor and Description
UnipeptExport()

Method Summary

Modifier and Type	Method and Description
static void	analyzeInUnipept(List<String> peptides, boolean equateIandL, boolean filterDuplicates, boolean handleMissingCleavage, File tempHtmlFile, com.compomics.util.waiting.WaitingHandler waitingHandler) Analyze the given list of peptides, with the specified configuration, using the Unipept web interface.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

UnipeptExport

public UnipeptExport()

Method Detail

analyzeInUnipept

public static void analyzeInUnipept(List<String> peptides,
                                    boolean equateIandL,
                                    boolean filterDuplicates,
                                    boolean handleMissingCleavage,
                                    File tempHtmlFile,
                                    com.compomics.util.waiting.WaitingHandler waitingHandler)
                             throws IOException

Analyze the given list of peptides, with the specified configuration, using the Unipept web interface.

Parameters:

peptides - a list of peptides that should be analyzed using Unipept

equateIandL - true if the amino acids I and L should be equated

filterDuplicates - true if duplicate peptide sequences should be filtered

handleMissingCleavage - true if missing cleavage handling should be enabled

tempHtmlFile - the temporary file for Unipept HTML forwarding

waitingHandler - the waiting handler

Throws:

IOException - thrown if something goes wrong with the export