BioConductor

recount 1.6.3

Explore and download data from the recount project

Dependencies

GEOquery 2.48.0 rtracklayer 1.40.5 derfinder 1.14.0 RCurl GenomeInfoDb 1.16.0 downloader 0.4 GenomicRanges 1.32.6 rentrez 1.2.1 IRanges 2.14.10 BiocParallel 1.14.2 S4Vectors 0.18.3 SummarizedExperiment 1.10.1

Explore and download data from the recount project available at https://jhubiostatistics.shinyapps.io/recount/. Using the recount package you can download RangedSummarizedExperiment objects at the gene, exon or exon-exon junctions level, the raw counts, the phenotype metadata used, the urls to the sample coverage bigWig files or the mean coverage bigWig file for a particular study. The RangedSummarizedExperiment objects can be used by different packages for performing differential expression analysis. Using http://bioconductor.org/packages/derfinder you can perform annotation-agnostic differential expression analyses with the data from the recount project as described at http://www.nature.com/nbt/journal/v35/n4/full/nbt.3838.html.

Source

Release History

• 1.6.3
• 1.6.2
• 1.6.0
• 1.5.11
• 1.5.10
• 1.5.9
• 1.5.8
• 1.5.7
• 1.5.6
• 1.5.5
• 1.5.2
• 1.2.3