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phoenics (version 0.5)

Pathways Longitudinal and Differential Analysis in Metabolomics

Description

Perform a differential analysis at pathway level based on metabolite quantifications and information on pathway metabolite composition. The method is based on a Principal Component Analysis step and on a linear mixed model. Automatic query of metabolic pathways is also implemented.

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Version

Install

install.packages('phoenics')

Monthly Downloads

204

Version

0.5

License

GPL-3

Maintainer

Camille Guilmineau

Last Published

January 29th, 2025

Functions in phoenics (0.5)

MTBLS422

Dataset "MTBLS422"
test_pathway

Pathway differential analysis based on longitudinal metabolomics data
from_ASICS_to_PHOENICS

Prepare quantification data from ASICS outputs
pathway_search

Query KEGG pathways for a given set of metabolites
pathwayRes

Class pathwayRes
overlap_coefficient

Calculate overlap coefficient between pathways