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Bioconductor - TENxIO (development version)

TENxIO

This is the development version of TENxIO; for the stable release version, see TENxIO.

Import methods for 10X Genomics files

Bioconductor version: Development (3.22)

Provides a structured S4 approach to importing data files from the 10X pipelines. It mainly supports Single Cell Multiome ATAC + Gene Expression data among other data types. The main Bioconductor data representations used are SingleCellExperiment and RaggedExperiment.

Author: Marcel Ramos [aut, cre] ORCID: 0000-0002-3242-0582

Maintainer: Marcel Ramos <marcel.ramos at sph.cuny.edu>

Citation (from within R, enter citation("TENxIO")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("TENxIO")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("TENxIO")
Details biocViews DataImport, Infrastructure, SingleCell, Software Version 1.11.5 In Bioconductor since BioC 3.16 (R-4.2) (2.5 years) License Artistic-2.0 Depends R (>= 4.5.0), SingleCellExperiment, SummarizedExperiment Imports BiocBaseUtils, BiocGenerics, BiocIO, Seqinfo, GenomicRanges, HDF5Array, Matrix, MatrixGenerics, methods, RCurl, readr, rhdf5, R.utils, S4Vectors, utils System Requirements URL https://github.com/waldronlab/TENxIO Bug Reports https://github.com/waldronlab/TENxIO/issues See More Package Archives

Follow Installation instructions to use this package in your R session.

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