AromaSeqTransform: The AromaSeqTransform class

In HenrikBengtsson/aroma.seq: High-Throughput Sequence Analysis using the Aroma Framework

Description

Package: aroma.seq
Class AromaSeqTransform

Object
~~|
~~+--ParametersInterface
~~~~~~~|
~~~~~~~+--AromaSeqTransform

Directly known subclasses:
AbstractAlignment, BamDownsampler, BamMerger, Bowtie2Alignment, BwaAlignment, FastQCReporter, FastqDownsampler, HTSeqCounting, PicardDuplicateRemoval, QDNAseqEstimation, SamTransform, TopHat2Alignment

public abstract static class AromaSeqTransform
extends ParametersInterface

...

Usage

AromaSeqTransform(dataSet=NULL, tags="*", flavor=NULL, ...,
  .className="GenericDataFileSet")

Arguments

dataSet	An GenericDataFileSet.
tags	Tags appended to the output data sets.
flavor	An optional character string.
...	Additional named parameters to be recorded.
.className	A character string specifying what class of data sets to accept.

Fields and Methods

Methods:

	length	-
	process	-

Methods inherited from ParametersInterface:
getParameterSets, getParameters, getParametersAsString

Methods inherited from Object:
$, $<-, [[, [[<-, as.character, attach, attachLocally, clearCache, clearLookupCache, clone, detach, equals, extend, finalize, getEnvironment, getFieldModifier, getFieldModifiers, getFields, getInstantiationTime, getStaticInstance, hasField, hashCode, ll, load, names, objectSize, print, save, findRspReportTemplate, asThis

Author(s)

Henrik Bengtsson

HenrikBengtsson/aroma.seq documentation built on Feb. 15, 2021, 2:21 a.m.