RaggedExperiment
This is the development version of RaggedExperiment; for the stable release version, see RaggedExperiment.
Representation of Sparse Experiments and Assays Across Samples
Bioconductor version: Development (3.23)
This package provides a flexible representation of copy number, mutation, and other data that fit into the ragged array schema for genomic location data. The basic representation of such data provides a rectangular flat table interface to the user with range information in the rows and samples/specimen in the columns. The RaggedExperiment class derives from a GRangesList representation and provides a semblance of a rectangular dataset.
Author: Martin Morgan [aut], Marcel Ramos [aut, cre]
, Lydia King [ctb]
Maintainer: Marcel Ramos <marcel.ramos at sph.cuny.edu>
citation("RaggedExperiment")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("RaggedExperiment")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | DataRepresentation, Infrastructure, Software |
| Version | 1.35.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (8.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 4.5.0), GenomicRanges(>= 1.61.1) |
| Imports | BiocBaseUtils, BiocGenerics, Seqinfo, IRanges, Matrix, MatrixGenerics, methods, S4Vectors, stats, SummarizedExperiment(>= 1.39.1), utils |
| System Requirements | |
| URL | https://bioconductor.github.io/RaggedExperiment https://bioconductor.org/packages/RaggedExperiment |
| Bug Reports | https://github.com/Bioconductor/RaggedExperiment/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat, GenomeInfoDb, MultiAssayExperiment |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/RaggedExperiment |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RaggedExperiment |
| Package Short Url | https://bioconductor.org/packages/RaggedExperiment/ |
| Package Downloads Report | Download Stats |