AbstractPETagsOnPhysicalMap

AbstractPETags
- net.maizegenetics.dna.map.AbstractPETagsOnPhysicalMap

All Implemented Interfaces:

PETags

Direct Known Subclasses:

PETagsOnPhysicalMap
```
public class AbstractPETagsOnPhysicalMap
extends AbstractPETags
```
Basic method of working with alignment of PE tags

Field Detail

chrF
```
protected kotlin.Array[] chrF
```

chrB
```
protected kotlin.Array[] chrB
```

chrContig
```
protected kotlin.Array[] chrContig
```

posStartF
```
protected kotlin.Array[] posStartF
```

posStartB
```
protected kotlin.Array[] posStartB
```

posStartContig

protected kotlin.Array[] posStartContig

posEndF
```
protected kotlin.Array[] posEndF
```

posEndB
```
protected kotlin.Array[] posEndB
```

posEndContig
```
protected kotlin.Array[] posEndContig
```

strandF
```
protected kotlin.Array[] strandF
```

strandB
```
protected kotlin.Array[] strandB
```

strandContig
```
protected kotlin.Array[] strandContig
```

Method Detail

iniMatrix

protected void iniMatrix(int tagLengthInLong,
                         int tagNum)

getChrF
```
public int getChrF(int index)
```

getChrB
```
public int getChrB(int index)
```

getChrContig
```
public int getChrContig(int index)
```

getPosStartF
```
public int getPosStartF(int index)
```

getPosStartB
```
public int getPosStartB(int index)
```

getPosStartContig

public int getPosStartContig(int index)

getPosEndF
```
public int getPosEndF(int index)
```

getPosEndB
```
public int getPosEndB(int index)
```

getPosEndContig

public int getPosEndContig(int index)

getStrandF
```
public byte getStrandF(int index)
```

getStrandB
```
public byte getStrandB(int index)
```

getStrandContig

public byte getStrandContig(int index)

Class AbstractPETagsOnPhysicalMap

Field Detail

chrF

chrB

chrContig

posStartF

posStartB

posStartContig

posEndF

posEndB

posEndContig

strandF

strandB

strandContig

Method Detail

iniMatrix

getChrF

getChrB

getChrContig

getPosStartF

getPosStartB

getPosStartContig

getPosEndF

getPosEndB

getPosEndContig

getStrandF

getStrandB

getStrandContig