Package org.snpsift.annotate
Class MarkerFile
- java.lang.Object
-
- org.snpeff.interval.Interval
-
- org.snpeff.interval.Marker
-
- org.snpsift.annotate.MarkerFile
-
- All Implemented Interfaces:
java.io.Serializable
,java.lang.Cloneable
,java.lang.Comparable<org.snpeff.interval.Interval>
,org.snpeff.serializer.TxtSerializable
public class MarkerFile extends org.snpeff.interval.Marker
Represents a marker in a file (located at 'fileIdx' bytes since the beginning of the file)- Author:
- pcingola
- See Also:
- Serialized Form
-
-
Field Summary
Fields Modifier and Type Field Description protected long
fileIdx
-
Constructor Summary
Constructors Constructor Description MarkerFile(org.snpeff.interval.Marker parent, int start, int end, long fileIdx)
-
Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description long
getFileIdx()
java.lang.String
toString()
-
Methods inherited from class org.snpeff.interval.Marker
adjust, apply, applyDel, applyDup, applyIns, applyMixed, clone, cloneShallow, codonTable, compareTo, compareToPos, distance, distanceBases, getParent, getType, idChain, idChain, idChain, includes, intersect, isAdjustIfParentDoesNotInclude, isDeferredAnalysis, isShowWarningIfParentDoesNotInclude, minus, query, query, readTxt, serializeParse, serializeSave, shouldApply, union, variantEffect, variantEffectNonRef
-
Methods inherited from class org.snpeff.interval.Interval
equals, findParent, getChromosome, getChromosomeName, getChromosomeNameOri, getChromosomeNum, getEnd, getGenome, getGenomeName, getId, getStart, getStrand, hashCode, intersects, intersects, intersects, intersects, intersectSize, isCircular, isSameChromo, isStrandMinus, isStrandPlus, isValid, setChromosomeNameOri, setEnd, setId, setParent, setStart, setStrandMinus, shiftCoordinates, size, toStr, toStringAsciiArt, toStrPos
-
-