Class StandardGenomeProvider

java.lang.Object

org.episteme.natural.biology.genome.providers.StandardGenomeProvider

All Implemented Interfaces:

AlgorithmProvider, GenomeProvider

public class StandardGenomeProvider
extends Object
implements GenomeProvider

Standard implementation of genome analysis.

Nested Class Summary

Nested classes/interfaces inherited from interface GenomeProvider

GenomeProvider.Target

Constructor Summary

Constructors

Constructor	Description
StandardGenomeProvider()

Method Summary

Modifier and Type	Method	Description
String	getAlgorithmType()	Returns the unique category of the algorithm.
String	getName()
List<GenomeProvider.Target>	scanCrispr(String sequence, String pamMotif, int spacerLength)	Scans for CRISPR targets.

Methods inherited from class Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface AlgorithmProvider

description, getMetadata, getPriority, isAvailable, score, shutdown

Constructor Details

StandardGenomeProvider

public StandardGenomeProvider()

Method Details

scanCrispr

public List<GenomeProvider.Target> scanCrispr(String sequence,
 String pamMotif,
 int spacerLength)

Description copied from interface: GenomeProvider

Scans for CRISPR targets.

Specified by:

scanCrispr in interface GenomeProvider

getName

public String getName()

Specified by:

getName in interface AlgorithmProvider

getAlgorithmType

public String getAlgorithmType()

Description copied from interface: AlgorithmProvider

Returns the unique category of the algorithm.

Specified by:

getAlgorithmType in interface AlgorithmProvider