Msa (Forester 1.038 API)

Nested Classes
Modifier and Type	Interface and Description
`static class`	`Msa.MSA_FORMAT`

All Methods Instance Methods Abstract Methods
Modifier and Type	Method and Description
`List<MolecularSequence>`	`asSequenceList()`
`List<Character>`	`getColumnAt(int col)`
`String`	`getIdentifier(int row)`
`int`	`getLength()`
`int`	`getNumberOfSequences()`
`char`	`getResidueAt(int row, int col)`
`MolecularSequence`	`getSequence(int row)`
`MolecularSequence`	`getSequence(String id)`
`StringBuffer`	`getSequenceAsString(int row)`
`MolecularSequence.TYPE`	`getType()`
`boolean`	`isGapAt(int row, int col)`
`void`	`setIdentifier(int row, String identifier)`
`void`	`setResidueAt(int row, int col, char residue)`
`void`	`write(Writer w, Msa.MSA_FORMAT format)`

void setIdentifier(int row,
                   String identifier)

char getResidueAt(int row,
                  int col)

boolean isGapAt(int row,
                int col)

MolecularSequence getSequence(String id)

MolecularSequence getSequence(int row)

List<MolecularSequence> asSequenceList()

StringBuffer getSequenceAsString(int row)

void setResidueAt(int row,
                  int col,
                  char residue)

void write(Writer w,
           Msa.MSA_FORMAT format)
    throws IOException

Interface Msa