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About

The goal of lfproQC R package is to provide an optimal combination of normalization and imputation methods for the label-free proteomics expression dataset.

Installation

You can install the development version of lfproQC from GitHub with:

# install.packages("devtools")
devtools::install_github("kabilansbio/lfproQC", build_manual = TRUE, build_vignette = TRUE)

Example

This is a basic example for finding the best combinations of normalization and imputation method for the label-free proteomics expression dataset:

library(lfproQC)
## basic example code with the example dataset and data groups
yeast <- best_combination(yeast_data, yeast_groups, data_type = "Protein")
yeast$`Best combinations`
#>   PCV_best_combination PEV_best_combination PMAD_best_combination
#> 1     rlr_knn, rlr_lls              vsn_lls               rlr_lls

The overall workflow for using the ‘lfproQC’ package

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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