Man pages for recount
Explore and download data from the recount project

abstract_searchSearch the abstracts from the SRA studies available via the...
add_metadataAdd additional curated metadata to a recount rse object
add_predictionsAdd predicted phenotypes to a recount rse object
all_metadataThis function downloads the metadata for all projects.
browse_studyOpen a SRA study id in the SRA website
coverage_matrixGiven a set of regions for a chromosome, compute the coverage...
download_studyDownload data for a given SRA study id from the recount...
expressed_regionsIdentify expressed regions from the mean coverage for a given...
find_geoFind the GEO accession id for a given SRA run
geo_characteristicsBuild a data.frame from GEO's charactersitics for a given...
geo_infoExtract information from GEO for a given sample
getRPKMCompute an RPKM matrix based on a RangedSummarizedExperiment...
read_countsCompute read counts
recount_abstractSummary information at the project level for the recount...
recount_exonsExon annotation used in recount
recount_genesGene annotation used in recount
recount-packageExplore and download data from the recount project.
recount_urlFiles and URLs hosted by the recount project
reproduce_rangesReproduce the gene or exons used in the...
rse_gene_SRP009615RangedSummarizedExperiment at the gene level for study...
scale_countsScale the raw counts provided by the recount project
snaptron_queryQuery Snaptron to get data from exon-exon junctions present...
recount documentation built on Dec. 4, 2018, 6:02 p.m.