frangipane / metabolomics-analysis Goto Github PK

R/ is a library of functions to aid in metabolomics analysis, including stats, models, and plotting. The directory examples/ contains some scripts using the functions defined in R/, along with an example of the required data format example_data.csv (containing made-up data).

The functions in R/ can be divided into the following categories:

• plotMetabolite_meanTimecourse.R
• groupMeans_timecourse.R
• plotheatmap2.R
• clusterData.R
• plotDendro.R
• plotLoadings.R
• plotLoadings2d.R
• plotScores.R

• ADtest.R
• plotQQ.R
• timecourse_ANOVA.R
• twowayANOVA.R

• plsModel.R
• shuffleModel.R (uses getPLSModelValues.R)
• permutationPlots.R (uses permutation_regressionCoeff.R, permutation_VIP.R, permutation_metric.R)