tidyCoverage
Extract and aggregate genomic coverage over features of interest
Bioconductor version: 3.23 · Package version: 1.8.0
`tidyCoverage` framework enables tidy manipulation of collections of genomic tracks and features using `tidySummarizedExperiment` methods. It facilitates the extraction, aggregation and visualization of genomic coverage over individual or thousands of genomic loci, relying on `CoverageExperiment` and `AggregatedCoverage` classes. This accelerates the integration of genomic track data in genomic analysis workflows.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("tidyCoverage") Details
| Maintainer | Jacques Serizay <jacquesserizay@gmail.com> |
| Author | Jacques Serizay [aut, cre] |
| License | MIT + file LICENSE |
| URL | https://github.com/js2264/tidyCoverage |
| Bug Reports | https://github.com/js2264/tidyCoverage/issues |
| Downloads rank | 215 |
| Source branch | RELEASE_3_23 |
| biocViews | Coverage, Sequencing, Software |
Documentation
Download
Dependencies
Depends: R (>= 4.3.0), SummarizedExperiment
Imports: S4Vectors, IRanges, GenomicRanges, GenomeInfoDb, BiocParallel, BiocIO, rtracklayer, methods, tidyr, tibble, ggplot2, ggrastr, dplyr, fansi, pillar, rlang, scales, cli, purrr, vctrs, stats
Suggests: tidySummarizedExperiment, plyranges, TxDb.Mmusculus.UCSC.mm10.knownGene, AnnotationHub, GenomicFeatures, BiocStyle, hues, knitr, rmarkdown, sessioninfo, testthat (>= 3.0.0)