TENxIO
Import methods for 10X Genomics files
Bioconductor version: 3.23 · Package version: 1.14.0
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("TENxIO") Details
| Maintainer | Marcel Ramos <marcel.ramos@sph.cuny.edu> |
| Author | Marcel Ramos [aut, cre] (ORCID: <https://orcid.org/0000-0002-3242-0582>), NCI [fnd] (GrantNo.: U24CA289073) |
| License | Artistic-2.0 |
| URL | https://github.com/waldronlab/TENxIO |
| Bug Reports | https://github.com/waldronlab/TENxIO/issues |
| Downloads rank | 408 |
| Source branch | RELEASE_3_23 |
| biocViews | DataImport, Infrastructure, SingleCell, Software |
Documentation
Download
Dependencies
Depends: R (>= 4.5.0), SingleCellExperiment, SummarizedExperiment
Imports: BiocBaseUtils, BiocGenerics, BiocIO, Seqinfo, GenomicRanges, HDF5Array, Matrix, MatrixGenerics, methods, readr, rhdf5, R.utils, S4Vectors, utils
Suggests: BiocStyle, DropletTestFiles, ExperimentHub, knitr, RaggedExperiment (>= 1.33.3), rmarkdown, Rsamtools, tinytest
Reverse dependencies
Depends On Me (2): VisiumIO, XeniumIO
Imports Me (2): imageFeatureTCGA, xenLite