Scalable Aberrant Splicing and Expression Retrieval

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Documentation for package ‘saseR’ version 1.3.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

ASpliSE	ASpliSE
BamtoAspliCounts	Converting BAM files to an ASpli-SummarizedExperiment, which contains gene, bin and junction counts.
calculateOffsets	calculating the offsets to perform aberrant expression or splicing analysis.
convertASpli	Converting SummarizedExperiment with different ASpli-counts to gene, bin or junction level counts.
features	features
saseRExample	saseRExample
saseRfindEncodingDim	Determine the optimal number of latent factors to detect outlier gene expression or splicing
saseRfit	Searching for aberrant expression or splicing.
SEbins	SEbins
SEgenes	SEgenes
SEjunctions	SEjunctions