MSstatsLiP
Bioc currentLiP Significance Analysis in shotgun mass spectrometry-based proteomic experiments
Release Lineage
Entered 3.14 · Oct 27, 2021
Current · Requires R 4.6
Description
Tools for LiP peptide and protein significance analysis. Provides functions for summarization, estimation of LiP peptide abundance, and detection of changes across conditions. Utilizes functionality across the MSstats family of packages.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
42 18 exported
Complexity
5.1 avg / 26 max
Call network
42 nodes / 33 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
8,353
Files
80
Compiled share
2.1%
Has compiled src
Yes
Language breakdown
API
Exported functions
18
Internal functions
21
Testing & CI
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
–
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
4.5%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.1
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
10
First release
2021-10-26
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
2
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- References docs
- 0%
Topics
People
- Anthony Wu author maintainer
- Valentina Cappelletti author
- Meena Choi author
- Ting Huang author
- Devon Kohler author
- Liliana Malinovska author
- Deril Raju author
- Mateusz Staniak author
- Tsung-Heng Tsai author
- Olga Vitek author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("MSstatsLiP")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.
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.