MSstatsLOBD
Bioc currentAssay characterization: estimation of limit of blanc(LoB) and limit of detection(LOD)
Release Lineage
Entered 3.13 · May 20, 2021
Current · Requires R 4.6
Description
The MSstatsLOBD package allows calculation and visualization of limit of blac (LOB) and limit of detection (LOD). We define the LOB as the highest apparent concentration of a peptide expected when replicates of a blank sample containing no peptides are measured. The LOD is defined as the measured concentration value for which the probability of falsely claiming the absence of a peptide in the sample is 0.05, given a probability 0.05 of falsely claiming its presence. These functionalities were previously a part of the MSstats package. The methodology is described in Galitzine (2018) <doi:10.1074/mcp.RA117.000322>.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
12 3 exported
Complexity
6.8 avg / 37 max
Call network
12 nodes / 4 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
1,737
Files
20
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
3
Internal functions
9
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
4.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
11
First release
2021-05-19
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
0
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 5
- Examples that run
- 100%5 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- 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/vitek-lab/msstatslodq on 2026-10-21.
The R CMD check workflow runs on macOS
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| raw_data | data.frame | 3,870 × 16 | No other package |
| spikeindata | tibble | 30 × 4 | No other package |
Topics
People
- Devon Kohler author maintainer
- Meena Choi author
- Cyril Galitzine author
- Mateusz Staniak author
- Olga Vitek author
Cite
Cite this package
Run in R for the authors' entry:
citation("MSstatsLOBD")The package provides a citation file, so citation() returns the authors' own entry.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.