# Imputation of label-free mass spectrometry peptides

## Documentation for package ‘msImpute’ version 1.22.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

computeStructuralMetrics | Metrics for the assessment of post-imputation structural preservation
CPD | CPD
evidenceToMatrix | Creates intensity matrix from tabular data in evidence table of MaxQuant
findVariableFeatures | Find highly variable peptides
KNC | k-nearest class means (KNC)
KNN | k-nearest neighbour (KNN)
msImpute | Imputation of peptide log-intensity in mass spectrometry label-free proteomics by low-rank approximation
mspip | Fills missing values by Peptide Identity Propagation (PIP)
plotCV2 | Plot mean-CV^2 trend
pxd007959 | Processed peptide intensity matrix and experimental design table from PXD007959 study
pxd010943 | SWATH-MS Analysis of Gfi1-mutant bone marrow neutrophils
pxd014777 | Processed peptide intensity matrix from PXD014777 study
scaleData | Standardize a matrix to have optionally row means zero and variances one, and/or column means zero and variances one.
selectFeatures | Select features for MAR/MNAR pattern examination