R Observatory: Metrics for sfi version 1.0.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

sfi

Bioc current

Data analysis for Single File Injections (SFIs) mode LC-MS analysis

v1.0.0 · software · MIT + file LICENSE

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.23 · Apr 29, 2026

Current · Requires R 4.6

1.0 In 1 of 49 releases 3.23

Description

Data analysis for Single File Injections(SFIs) mode LC-MS analysis. In SFIs mode, pooled samples are initially injected to serve as reference peaks for subsequent analyses. Repeated injections of individual samples are then performed at fixed time intervals using isocratic elution. This package provides the functions to analyze data from SFIs mode including peak picking and peak reassignment.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

31 10 exported

Complexity

2.7 avg / 13 max

Call network

31 nodes / 15 edges

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

Call graph

Open call graph →

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Lowest coverage

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

Code

Structure

Lines of code

2,370

Files

32

Compiled share

13.2%

Has compiled src

Yes

Language breakdown

R 1,185 (50%)C/C++/src 312 (13.2%)Tests 98 (4.1%)Docs 555 (23.4%)Vignettes 220 (9.3%)

API

Exported functions

10

Internal functions

13

Recent export changes

v3.23+10 find_2d_peaks, find_peaks_low_res, get_qc_features +7 more

Testing & CI

Has tests

Yes

Test-to-code ratio

0.08

testthat edition

3

CI present

No

CI type

[]

PR gated

No

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

MIT + file LICENSE

License flags

SPDX valid, OSI approved

History

Versions

1

First release

2026-04-28

Latest release

2026-04-28

Avg cadence

–

Cold removal rate

–

Dep drift

0

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

Documentation

READMEYes · 204 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Topics

Software › Technology › MassSpectrometry

Software › ResearchField › Metabolomics

Software › StatisticalMethod › FeatureExtraction

People

Miao YU author maintainer

At a glance

Version: 1.0.0
Category: software
License: MIT + file LICENSE
Requires R: ≥ 4.6
Maintainer: Miao YU
Entered: 3.23 · Apr 29, 2026
Current: 3.23 · Apr 29, 2026

Available on

CRAN r2u Bioconductor autoCRAN COPR

Dependencies

Depends

R (>= 4.5.0)

Imports

Rcpp enviGCMSstatsmzRBiocrmarkdownmethodsSummarizedExperimentBiocS4VectorsBioc

Suggests

knitr data.tableBiocStyleBiocggplot2MsCoreUtilsBioctestthat (>= 3.0.0)

Source & history

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("sfi")

Format

YU, M. (2026). sfi: Data analysis for Single File Injections (SFIs) mode LC-MS analysis (Version 1.0.0) [Computer software]. https://bioconductor.org/packages/sfi

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 sfi version 1.0.0 [Data set]. HJJB, LLC. Data release v2026-08-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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