R Observatory: Metrics for bnbc version 1.34.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

bnbc

Bioc current

Bandwise normalization and batch correction of Hi-C data

v1.34.0 · software · Artistic-2.0

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.6 · Oct 31, 2017

Current · Requires R 4.6

1.0 In 18 of 49 releases 3.23

Description

Tools to normalize (several) Hi-C data from replicates.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

39 20 exported

Complexity

1.6 avg / 9 max

Call network

39 nodes / 30 edges

Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.

Call graph

Open call graph →

Loading call graph…

Lowest coverage

Per-function coverage is not measured for this package yet.

Code

Structure

Lines of code

1,486

Files

35

Compiled share

10.8%

Has compiled src

Yes

Language breakdown

R 405 (27.3%)C/C++/src 161 (10.8%)Tests 2 (0.1%)Docs 643 (43.3%)Vignettes 275 (18.5%)

API

Exported functions

20

Internal functions

7

Recent export changes

v3.6+17 bnbc, ContactGroup, contacts +14 more

Testing & CI

Has tests

Yes

Test-to-code ratio

0.00

testthat edition

–

CI present

Yes

CI type

["travis"]

PR gated

No

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

–

Unsafe pattern score

0

Dep constraint coverage

6.3%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

3.5.0

System requirements

–

C++ standard

–

License

Artistic-2.0

License flags

SPDX valid, OSI approved

History

Versions

18

First release

2017-10-30

Latest release

2026-04-28

Avg cadence

182 days

Cold removal rate

100%

Dep drift

6

LOC over versions

Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.

Documentation

READMEYes · 56 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 90%
Documented parameters: 100%
Return-value docs: 100%
References docs: 36%

Topics

Software › Technology › Sequencing › HiC

Software › WorkflowStep › Preprocessing

Software › WorkflowStep › Normalization

Software

People

Kipper Fletez-Brant maintainer author
Kasper Daniel Hansen author

At a glance

Version: 1.34.0
Category: software
License: Artistic-2.0
Requires R: ≥ 4.6
Maintainer: Kipper Fletez-Brant
Entered: 3.6 · Oct 31, 2017
Current: 3.23 · Apr 29, 2026

Available on

CRAN r2u Bioconductor autoCRAN COPR

Dependencies

Depends

R (>= 3.5.0)methodsBiocGenericsBiocSummarizedExperimentBiocGenomicRangesBioc

Imports

Rcpp (>= 0.12.12)IRangesBiocrhdf5Biocdata.tableSeqinfoBiocS4VectorsBiocmatrixStatspreprocessCoreBiocsvaBiocparallelEBImageBiocutils

Suggests

BiocStyleBiocknitr rmarkdown RUnitBSgenome.Hsapiens.UCSC.hg19Bioc

Source & history

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("bnbc")

Format

Fletez-Brant, K., & Hansen, K. D. (2026). bnbc: Bandwise normalization and batch correction of Hi-C data (Version 1.34.0) [Computer software]. https://bioconductor.org/packages/bnbc

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for bnbc version 1.34.0 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →