This package is considered a duplicate. The official version of this package is found at:https://bioc.r-universe.dev/TENxIO

Package: TENxIO 1.15.0

Marcel Ramos

TENxIO: Import methods for 10X Genomics files

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.

Authors:Marcel Ramos [aut, cre], NCI [fnd]

TENxIO_1.15.0.tar.gz
TENxIO_1.15.0.zip(r-4.7)TENxIO_1.15.0.zip(r-4.6)TENxIO_1.15.0.zip(r-4.5)
TENxIO_1.15.0.tgz(r-4.6-any)TENxIO_1.15.0.tgz(r-4.5-any)
TENxIO_1.15.0.tar.gz(r-4.7-any)TENxIO_1.15.0.tar.gz(r-4.6-any)
TENxIO_1.15.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
TENxIO/json (API)

# Install 'TENxIO' in R:

install.packages('TENxIO', repos = c('https://waldronlab.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/waldronlab/tenxio/issues

On BioConductor:TENxIO-1.15.0(bioc 3.24)TENxIO-1.14.0(bioc 3.23)

software infrastructure dataimport singlecell bioconductor-package u24ca289073

6.16 score 1 stars 5 packages 16 scripts 17 exports 55 dependencies

Last updated from:4d4c00e280. Checks:7 NOTE, 2 OK. Indexed: no.

Target	Result	Time
linux-devel-x86_64	NOTE	336
source / vignettes	OK	327
linux-release-x86_64	NOTE	302
macos-release-arm64	NOTE	159
macos-oldrel-arm64	NOTE	165
windows-devel	NOTE	238
windows-release	NOTE	251
windows-oldrel	NOTE	354
wasm-release	OK	159

Exports:annotation annotation<-decompress genome import metadata path rowData rowRanges show TENxFile TENxFileList TENxFragments TENxH5 TENxMTX TENxPeaks TENxTSV

Dependencies:abind Biobase BiocBaseUtils BiocGenerics BiocIO biocmake bit bit64 cli clipr cpp11 crayon DelayedArray dir.expiry filelock generics GenomicRanges glue h5mread HDF5Array hms IRanges lattice lifecycle magrittr Matrix MatrixGenerics matrixStats pillar pkgconfig prettyunits progress R.methodsS3 R.oo R.utils R6 readr rhdf5 rhdf5filters Rhdf5lib rlang S4Arrays S4Vectors Seqinfo SingleCellExperiment SparseArray SummarizedExperiment tibble tidyselect tzdb utf8 vctrs vroom withr XVector

TENxIO: Import Single Cell Data Files

Rendered fromTENxIO.Rmdusingknitr::rmarkdown

Last update: 2025-12-05
Started: 2022-08-24

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
TENxFile constructor function	TENxFile
TENxFile: General purpose class for 10X files	.TENxFile metadata,TENxFile-method TENxFile-class
TENxFileList: Represent groups of files from 10X Genomic	TENxFileList
TENxFileList: A list-like representation for TENxFiles	.TENxFileList decompress,TENxFileList-method import,TENxFileList,ANY,ANY-method metadata,TENxFileList-method path,TENxFileList-method TENxFileList-class
TENxFragments: Import fragments files from 10X	TENxFragments
TENxFragments: A class to represent fragments data as 'GRanges'	.TENxFragments import,TENxFragments,ANY,ANY-method TENxFragments-class
TENxH5: Represent H5 files from 10X	TENxH5
TENxH5: The HDF5 file representation class for 10X Data	.TENxH5 dim,TENxH5-method dimnames,TENxH5-method genome,TENxH5-method import,TENxH5,ANY,ANY-method rowData,TENxH5-method rowRanges,TENxH5-method show,TENxH5-method TENxH5-class
TENxIO: A Bioconductor package for importing 10X Genomics files	TENxIO-package TENxIO
TENxMTX: Represent Matrix Market Format Files from 10X	TENxMTX
TENxMTX: The Matrix Market representation class for 10X Data	.TENxMTX import,TENxMTX,ANY,ANY-method TENxMTX-class
Import 10x peak annotation files from 10x	TENxPeaks
TENxPeaks: The class to represent 10x Peaks files	.TENxPeaks annotation,SingleCellExperiment-method annotation<-,SingleCellExperiment,ANY-method import,TENxPeaks,ANY,ANY-method TENxPeaks-class
TENxTSV: A class to represent 10x tab separated values files	.TENxTSV import,TENxTSV,ANY,ANY-method metadata,TENxTSV-method TENxTSV TENxTSV-class