org.opencb.biodata.models.clinical.interpretation.GenomicFeature Maven / Gradle / Ivy

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/*
 * 
 *
 */

package org.opencb.biodata.models.clinical.interpretation;

import org.opencb.biodata.models.core.Xref;
import org.opencb.biodata.models.variant.avro.SequenceOntologyTerm;

import java.util.List;

public class GenomicFeature {
    private String id;
    private String type; // GENE, VARIANT, REGION,...
    private String transcriptId;
    private String geneName;
    private List consequenceTypes;
    private List xrefs;

    public GenomicFeature() {
    }

    public GenomicFeature(String id, String type, String transcriptId, String geneName, List consequenceTypes,
                          List xrefs) {
        this.id = id;
        this.type = type;
        this.transcriptId = transcriptId;
        this.geneName = geneName;
        this.consequenceTypes = consequenceTypes;
        this.xrefs = xrefs;
    }

    @Override
    public String toString() {
        final StringBuilder sb = new StringBuilder("GenomicFeature{");
        sb.append("id='").append(id).append('\'');
        sb.append(", type='").append(type).append('\'');
        sb.append(", transcriptId='").append(transcriptId).append('\'');
        sb.append(", geneName='").append(geneName).append('\'');
        sb.append(", consequenceTypes=").append(consequenceTypes);
        sb.append(", xrefs=").append(xrefs);
        sb.append('}');
        return sb.toString();
    }

    public String getId() {
        return id;
    }

    public GenomicFeature setId(String id) {
        this.id = id;
        return this;
    }

    public String getType() {
        return type;
    }

    public GenomicFeature setType(String type) {
        this.type = type;
        return this;
    }

    public String getTranscriptId() {
        return transcriptId;
    }

    public GenomicFeature setTranscriptId(String transcriptId) {
        this.transcriptId = transcriptId;
        return this;
    }

    public String getGeneName() {
        return geneName;
    }

    public GenomicFeature setGeneName(String geneName) {
        this.geneName = geneName;
        return this;
    }

    public List getConsequenceTypes() {
        return consequenceTypes;
    }

    public GenomicFeature setConsequenceTypes(List consequenceTypes) {
        this.consequenceTypes = consequenceTypes;
        return this;
    }

    public List getXrefs() {
        return xrefs;
    }

    public GenomicFeature setXrefs(List xrefs) {
        this.xrefs = xrefs;
        return this;
    }
}