org.dishevelled.bio.tools

Class FilterBed

java.lang.Object

org.dishevelled.bio.tools.AbstractFilter

org.dishevelled.bio.tools.FilterBed

All Implemented Interfaces:

Callable<Integer>

public final class FilterBed
extends AbstractFilter

Filter features in BED format.

Since:

1.1

Author:

Michael Heuer

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
(package private) static interface	FilterBed.Filter Filter.
static class	FilterBed.RangeFilter Range filter.
static class	FilterBed.ScoreFilter Score filter.
static class	FilterBed.ScriptFilter Script filter.

Constructor Summary

Constructors

Constructor and Description
FilterBed(List<FilterBed.Filter> filters, File inputBedFile, File outputBedFile) Filter features in BED format.
FilterBed(List<FilterBed.Filter> filters, Path inputBedPath, File outputBedFile) Filter features in BED format.

Method Summary

Modifier and Type	Method and Description
Integer	call()
static void	main(String[] args) Main.

Methods inherited from class org.dishevelled.bio.tools.AbstractFilter

createScriptEngine

Methods inherited from class java.lang.Object

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

Constructor Detail

FilterBed

public FilterBed(List<FilterBed.Filter> filters,
                 File inputBedFile,
                 File outputBedFile)

Filter features in BED format.

Parameters:

filters - list of filters, must not be null

inputBedFile - input BED file, if any

outputBedFile - output BED file, if any

FilterBed

public FilterBed(List<FilterBed.Filter> filters,
                 Path inputBedPath,
                 File outputBedFile)

Filter features in BED format.

Parameters:

filters - list of filters, must not be null

inputBedPath - input BED path, if any

outputBedFile - output BED file, if any

Since:

2.1

Method Detail

call

public Integer call()
             throws Exception

Throws:

Exception

main

public static void main(String[] args)

Main.

Parameters:

args - command line args