TENxIO
Bioc currentImport methods for 10X Genomics files
Release Lineage
Entered 3.16 · Nov 2, 2022
Current · Requires R 4.6
Description
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.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
30 7 exported
Complexity
2.6 avg / 17 max
Call network
30 nodes / 22 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
2,576
Files
48
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
7
Internal functions
22
Testing
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.5.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
8
First release
2023-02-10
Latest release
2026-04-28
Avg cadence
176 days
Cold removal rate
–
Dep drift
5
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 14includes a package overview page
- Examples that run
- 100%6 run in a plain check (1 of them under a condition)
- Exported functions with examples
- 86%
- Documented parameters
- 95%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
4 development-tooling and community-health practices detected across 2 families in the upstream repository
Checks run against github.com/waldronlab/tenxio on 2026-10-21.
GitHub Pages site
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| pbmc_3k_atac_ex_fragments | data.frame | 9 × 5 | No other package |
| pbmc_3k_atac_ex_fragments.tsv.gz | data.frame | 1 × 1 | No other package |
| pbmc_granulocyte_sorted_3k_ex_atac_peak_annotation | data.frame | 10 × 6 | No other package |
Topics
Depended on by (4)
Bioconductor (4)
People
- Marcel Ramos author maintainer
-
NCI
funder
U24CA289073
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("TENxIO")This package has no citation file, so citation() returns this entry built from DESCRIPTION.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.