Package: msImpute
Type: Package
Title: Imputation of label-free mass spectrometry peptides
Version: 1.20.0
Authors@R: 
    person(given = "Soroor",
           family = "Hediyeh-zadeh",
           role = c("aut", "cre"),
           email = "hediyehzadeh.s@wehi.edu.au",
           comment = c(ORCID = "0000-0001-7513-6779"))
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).
Depends: R (>= 3.5.0)
SystemRequirements: python
Imports: softImpute, methods, stats, graphics, pdist, reticulate,
        scran, data.table, FNN, matrixStats, limma, mvtnorm, tidyr,
        dplyr
License: GPL (>=2)
Encoding: UTF-8
LazyData: true
BugReports: https://github.com/DavisLaboratory/msImpute/issues
RoxygenNote: 7.1.1
Suggests: BiocStyle, knitr, rmarkdown, ComplexHeatmap, imputeLCMD
VignetteBuilder: knitr
biocViews: MassSpectrometry, Proteomics, Software
Config/pak/sysreqs: libglpk-dev libicu-dev libpng-dev libxml2-dev
        python3 zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:02:31 UTC
RemoteUrl: https://github.com/bioc/msImpute
RemoteRef: RELEASE_3_22
RemoteSha: c038506cd4ef48b7a13ed863a5b1fccaa024f444
NeedsCompilation: no
Packaged: 2026-03-07 08:10:15 UTC; root
Author: Soroor Hediyeh-zadeh [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-7513-6779>)
Maintainer: Soroor Hediyeh-zadeh <hediyehzadeh.s@wehi.edu.au>
Built: R 4.5.2; ; 2026-03-07 08:12:00 UTC; windows
