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GMSimpute (version 0.0.1.0)

Generalized Mass Spectrum Missing Peaks Abundance Imputation

Description

Two-Step Lasso (TS-Lasso) and compound minimum methods to recover the abundance of missing peaks in mass spectrum analysis. TS-Lasso is an imputation method that handles various types of missing peaks simultaneously. This package provides the procedure to generate missing peaks (or data) for simulation study, as well as a tool to estimate and visualize the proportion of missing at random.

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Version

Install

install.packages('GMSimpute')

Monthly Downloads

186

Version

0.0.1.0

License

GPL (>= 2)

Maintainer

Qian Li

Last Published

January 11th, 2019

Functions in GMSimpute (0.0.1.0)

tcga.bc.full

A subset of mass spectrum metabolomics data for TCGA breast cancer study without missing peaks.
GMS.Lasso

Generalized Mass Spectrum missing peaks imputation with Two-Step Lasso as default algorithm
tcga.bc

Raw mass spectrum metabolomics data for TCGA breast cancer study.
MAR.est

Missing At Random (MAR) proportion estimation based on technical replicates.
TS.Lasso

Two-Step Lasso for missing peaks imputation
missing.sim

Missing peaks generating procedure for simulation study
replicates

Raw mass spectrum proteomics log abundance for 4 pairs of technical replicates.