Access matrix-like HDF5 server content or BigQuery content through a SummarizedExperiment interface


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Documentation for package ‘restfulSE’ version 1.0.2

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.RESTfulSummarizedExperiment Construct RESTfulSummarizedExperiment
assay Construct RESTfulSummarizedExperiment
assay-method Construct RESTfulSummarizedExperiment
assay-method extract assay data
assayNames-method HDF5Server-based assay for SummarizedExperiment
assayNames-method Placeholder for assay name extractor for a BQSummarizedExperiment instance.
assays-method Assays access for RESTfulSummarizedExperiment
BQSummarizedExperiment-class Define a class to use BigQuery data through SummarizedExperiment interface
cgcConn Simplify connection to a BigQuery dataset for the project "isb-cgc"
dim-method Dimension access for RESTfulSummarizedExperiment
goPatt Create a data.frame with ENSEMBL and SYMBOL identifiers associated with a GO TERM specified by a regular expression in 'termPattern'
gtexTiss Convenience function for access to gene-level GTEx tissues, as quantified in recount
isbCgcDatasets Access the dataset names in the "isb-cgc" project
isbCgcTables List the tables in a selected dataset
RESTfulSummarizedExperiment Construct RESTfulSummarizedExperiment
RESTfulSummarizedExperiment-class HDF5Server-based assay for SummarizedExperiment
RESTfulSummarizedExperiment-method Construct RESTfulSummarizedExperiment
se1.3M Convenience functions using EC2 server to extract tenx neurons full or subset data
se100k Convenience functions using EC2 server to extract tenx neurons full or subset data
seByTumor Given a BigQueryConnection to the 2017 GDC-oriented ISB TCGA bigtables, obtain a SummarizedExperiment 'shell' rowData and colData
seByTumor_2016 Given a BigQueryConnection to the 2016 ISB TCGA bigtables, obtain a SummarizedExperiment 'shell' rowData and colData
tasicCortex A set of mouse cortex marker genes.
[-method HDF5Server-based assay for SummarizedExperiment