Uses of Interface
calhoun.analysis.crf.io.InputComponentIO

Packages that use InputComponentIO

calhoun.analysis.crf.io

handles input and output of gene calling formats

Uses of InputComponentIO in calhoun.analysis.crf.io

Subinterfaces of InputComponentIO in calhoun.analysis.crf.io

interface

InterleavedInputComponent an input component that can be used with the InputHandlerInterleaved.

Classes in calhoun.analysis.crf.io that implement InputComponentIO

class	AlignmentTree
class	BooleanInput reads in an input consisting of a string of 1's and 0's that correspond to binary values.
class	FastaAlignmentInput
class	FastaInput
class	InterleavedInputComponentBase base class for InterleavedInputComponents.
class	Interval21HiddenSequenceTranslator
class	IntervalInput an input component used to read in values that are similar for long intervals.
class	IntInput reads in an input consisting of a list of ints that correspond to binary values.
class	IntInputInterval29
class	MultipleAlignmentInput an input component that reads in multiple alignment sequences.
class	NameInput an input component that reads in a name for each sequence.
class	StringInput reads in an input consisting of a string.

Methods in calhoun.analysis.crf.io that return InputComponentIO

InputComponentIO

InputHandlerFile.getInputReader() gets the reader used to read in input sequences.

Methods in calhoun.analysis.crf.io that return types with arguments of type InputComponentIO

java.util.Map<java.lang.String,InputComponentIO>

InputHandlerDirectory.getInputReaders() gets the readers used to read in input sequences.

Methods in calhoun.analysis.crf.io with parameters of type InputComponentIO

void	InputHandlerFile.setInputReader(InputComponentIO inputReader) gets the reader used to read in input sequences.

Method parameters in calhoun.analysis.crf.io with type arguments of type InputComponentIO

void	InputHandlerDirectory.setInputReaders(java.util.Map<java.lang.String,InputComponentIO> inputReader) sets the readers used to read in input sequences.