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phoenics (version 0.3)

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

0.3

License

GPL-3

Maintainer

Camille Guilmineau

Last Published

July 22nd, 2024

Functions in phoenics (0.3)

pathwayRes

Class pathwayRes
MTBLS422

Dataset "MTBLS422"
overlap_coefficient

Calculate overlap coefficient between pathways
pathway_search

Query KEGG pathways for a given set of metabolites
test_pathway

Pathway differential analysis based on longitudinal metabolomics data
from_ASICS_to_PHOENICS

Prepare quantification data from ASICS outputs