DOI: 10.18129/B9.bioc.msImpute  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see msImpute.

Imputation of label-free mass spectrometry peptides

Bioconductor version: 3.16

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).

Author: Soroor Hediyeh-zadeh [aut, cre]

Maintainer: Soroor Hediyeh-zadeh <hediyehzadeh.s at>

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biocViews MassSpectrometry, Proteomics, Software
Version 1.8.0
In Bioconductor since BioC 3.12 (R-4.0) (2.5 years)
License GPL (>=2)
Depends R (>= 3.5.0)
Imports softImpute, methods, stats, graphics, pdist, reticulate, scran, data.table, FNN, matrixStats, limma, mvtnorm, tidyr, dplyr
Suggests BiocStyle, knitr, rmarkdown, ComplexHeatmap, imputeLCMD
SystemRequirements python
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