msImpute
Bioc currentImputation of label-free mass spectrometry peptides
Release Lineage
Entered 3.12 · Oct 28, 2020
Current · Requires R 4.6
Description
MsImpute is a package for imputation of peptide intensity in proteomics experiments. It additionally contains tools for MAR/MNAR diagnosis and assessment of distortions to the probability distribution of the data post imputation. The missing values are imputed by low-rank approximation of the underlying data matrix if they are MAR (method = "v2"), by Barycenter approach if missingness is MNAR ("v2-mnar"), or by Peptide Identity Propagation (PIP).
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
23 11 exported
Complexity
3.1 avg / 8 max
Call network
23 nodes / 14 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
2,574
Files
38
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
11
Internal functions
12
Testing
Has tests
No
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
–
System requirements
1 externalpython
C++ standard
–
License
GPL (>=2)
License flags
not SPDX, not OSI
History
Versions
12
First release
2020-10-27
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
3
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 14
- Examples that run
- 100%9 run in a plain check
- Exported functions with examples
- 82%
- Documented parameters
- 100%
- Return-value docs
- 91%
- Help pages citing references
- 50%
Repository practices
4 development-tooling and community-health practices detected across 2 families in the upstream repository
Checks run against github.com/davislaboratory/msimpute on 2026-10-18.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
Datasets
Topics
People
- Soroor Hediyeh-zadeh author maintainer
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("msImpute")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.
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