Function reference • recount

All functions
`abstract_search()`	Search the abstracts from the SRA studies available via the recount project
`add_metadata()`	Add additional curated metadata to a recount rse object
`add_predictions()`	Add predicted phenotypes to a recount rse object
`all_metadata()`	This function downloads the metadata for all projects.
`browse_study()`	Open a SRA study id in the SRA website
`coverage_matrix()`	Given a set of regions for a chromosome, compute the coverage matrix for a given SRA study.
`download_retry()`	Retry multiple times to download a file
`download_study()`	Download data for a given SRA study id from the recount project
`expressed_regions()`	Identify expressed regions from the mean coverage for a given SRA project
`find_geo()`	Find the GEO accession id for a given SRA run
`geo_characteristics()`	Build a data.frame from GEO's charactersitics for a given sample
`geo_info()`	Extract information from GEO for a given sample
`getRPKM()`	Compute an RPKM matrix based on a RangedSummarizedExperiment object
`getTPM()`	Compute a TPM matrix based on a RangedSummarizedExperiment object
`read_counts()`	Compute read counts
`recount_abstract`	Summary information at the project level for the recount project
`recount_exons`	Exon annotation used in recount
`recount_genes`	Gene annotation used in recount
`recount_url`	Files and URLs hosted by the recount project
`reproduce_ranges()`	Reproduce the gene or exons used in the RangedSummarizedExperiment objects
`rse_gene_SRP009615`	RangedSummarizedExperiment at the gene level for study SRP009615
`scale_counts()`	Scale the raw counts provided by the recount project
`snaptron_query()`	Query Snaptron to get data from exon-exon junctions present in Intropolis

Reference

All functions