public class ReferenceTracks
extends Object

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`addCoverage(int pos, int amount)`
`void`	`addMismatches(int pos, int amount)`
`byte`	`baseAt(int pos)`
`short`	`coverageAt(int pos)`
`void`	`ensure(int start, int end)`
`void`	`ensureRange(int start, int length)`
`int`	`getReferenceLength()`
`int`	`getSequenceId()`
`String`	`getSequenceName()`
`int`	`getWindowLength()`
`int`	`getWindowPosition()`
`short`	`mismatchesAt(int pos)`

public ReferenceTracks(int sequenceId,
                       String sequenceName,
                       byte[] reference)

public void ensure(int start,
                   int end)

public void ensureRange(int start,
                        int length)

public final short coverageAt(int pos)

public final short mismatchesAt(int pos)

public final void addCoverage(int pos,
                              int amount)

public final void addMismatches(int pos,
                                int amount)

Class ReferenceTracks