Man pages for easyRNASeq
Count summarization and normalization for RNA-Seq data

basename-methodsExtend the basename function to display Rsamtools BamFile...
DESeq-methodsExtension for the DESeq package
easyRNASeq-accessorsAccessors for RNAseq class
easyRNASeq-annotation-internal-methodsInternal easyRNASeq annotation methods
easyRNASeq-annotation-methodsGet genic annotation from a gff3/gtf file or using biomaRt
easyRNASeq-AnnotParamAnnotParam constructor
easyRNASeq-AnnotParam-accessorsAccessors for AnnotParam class
easyRNASeq-AnnotParam-classClass "AnnotParam"
easyRNASeq-BamFileListGet a BamFileList from a list of filenames
easyRNASeq-BamParamBamParam constructor
easyRNASeq-BamParam-accessorsAccessors for BamParam class
easyRNASeq-BamParam-classClass "BamParam"
easyRNASeq-classClass "RNAseq"
easyRNASeq-correction-methodseasyRNASeq count table correction to RPKM
easyRNASeq-coverage-methodsCompute the coverage from a Short Read Alignment file
easyRNASeq-datasetsDataset included in the package
easyRNASeq-defunctThe following function are defunct: * 'fetchAnnotation' *...
easyRNASeq-defunct-annotation-methodsDefunct annotation function
easyRNASeq-deprecatedThe following function have been deprecated: * 'easyRNASeq' *...
easyRNASeq-easyRNASeqeasyRNASeq method
easyRNASeq-global-variablesObjects created when the package is attached.
easyRNASeq-internal-AnnotParam-methodsInternal methods of AnnotParam objects
easyRNASeq-internal-methodsInternal methods of RNAseq objects
easyRNASeq-island-methodsIdentify expressed regions de-novo
easyRNASeq-packageCount summarization and normalization pipeline for Next...
easyRNASeq-RnaSeqParamRnaSeqParam constructor
easyRNASeq-RnaSeqParam-accessorsAccessors for RnaSeqParam class
easyRNASeq-RnaSeqParam-classClass "RnaSeqParam"
easyRNASeq-simpleRNASeqsimpleRNASeq method
easyRNASeq-summarization-internal-methodsInternal count and summarization methods
easyRNASeq-summarization-methodsCount methods for RNAseq object
easyRNASeq-synthetic-transcriptsMethods to create synthetic transcripts
edgeR-methodsExtension for the edgeR package
file.exists-methodsExtend the file.exists function to check the path slot of a...
genomeIntervals-methodsExtension for the genomeIntervals package
GenomicRanges-methodsExtension of the GenomicRanges package
IRanges-methodsExtension of the IRanges package
parallel-methodsparallel additional methods
print-methodsPretty print the content of classes from the easyRNASeq...
Rsamtools-methodsExtension of the Rsamtools package
ShortRead-methodsMethods extending the ShortRead package functionalities
show-methodsDisplay the content of classes from the easyRNASeq package.
easyRNASeq documentation built on July 15, 2017, 2 a.m.