Explore and download data from the recount3 project

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Documentation for package ‘recount3’ version 1.19.2

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

Help Pages

annotation_ext	Obtain the file extension for a given organism and annotation
annotation_options	List available annotation options for a given organism
available_projects	List available projects in recount3
available_samples	List available samples in recount3
compute_read_counts	Compute read counts
compute_scale_factors	Compute count scaling factors
create_hub	Create UCSC track hub for BigWig files
create_rse	Create a recount3 RangedSummarizedExperiment gene or exon object
create_rse_manual	Internal function for creating a recount3 RangedSummarizedExperiment object
expand_sra_attributes	Expand SRA attributes
file_retrieve	Download a remote file and cache it to re-use later
is_paired_end	Guess whether the samples are paired end
locate_url	Construct the URL to access a particular 'recount3' file
locate_url_ann	Construct the URL to a recount3 annotation file
project_homes	Find available project home options
read_counts	Read a counts file
read_metadata	Read the metadata files
recount3_cache	Specify where to cache the recount3 files
recount3_cache_files	Locate recount3 cached files
recount3_cache_rm	Remove recount3 cached files
transform_counts	Transform the raw counts provided by the recount3 project