PeakCombiner.java

/*
 * Copyright (c) 2003-2012 Fred Hutchinson Cancer Research Center
 *
 * Licensed under the Apache License, Version 2.0 (the "License");
 * you may not use this file except in compliance with the License.
 * You may obtain a copy of the License at
 *
 *     http://www.apache.org/licenses/LICENSE-2.0
 *
 * Unless required by applicable law or agreed to in writing, software
 * distributed under the License is distributed on an "AS IS" BASIS,
 * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 * See the License for the specific language governing permissions and
 * limitations under the License.
 */

package org.fhcrc.cpl.viewer.feature.extraction;

import org.fhcrc.cpl.toolbox.proteomics.feature.Feature;
import org.fhcrc.cpl.toolbox.proteomics.feature.Spectrum;
import org.fhcrc.cpl.toolbox.proteomics.MSRun;


/**
 * Combine peaks into peptide features
 */
public interface PeakCombiner
{
    public static int DEFAULT_MAX_CHARGE = 6;

    /**
     * What it says
     * @param run
     * @param peaksIN
     * @return
     */
    public Feature[] createFeaturesFromPeaks(MSRun run, Spectrum.Peak[] peaksIN);
}