ArrayExpress High Throughput Sequencing Processing Pipeline


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Documentation for package ‘ArrayExpressHTS’ version 1.28.0

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ArrayExpressHTS ExpressionSet for RNA-Seq experiment submitted in ArrayExpress and ENA
ArrayExpressHTSFastQ ExpressionSet for RNA-Seq raw data files
getDefaultFilteringOptions Functions to work with ArrayExpressHTS processing options
getDefaultProcessingOptions Functions to work with ArrayExpressHTS processing options
getDefaultRCloudOptions Functions to work with ArrayExpressHTS processing options
getPipelineOption Functions to work with package level options
getPipelineOptions Functions to work with package level options
isRCloud Check the code is running on R-Cloud
prepareAnnotation Prepare annotation data for the RNA-Seq Pipeline
prepareReference Prepare reference data for the RNA-Seq Pipeline
setPipelineOptions Functions to work with package level options