W4M Transformation

Version: 2.2.2

Short description

Transforms the dataMatrix intensity values.

Description

Performs transformation of the dataMatrix intensity values aimed at stabilizing variance. For mass spectrometry data, where multiplicative noise has been reported, logarithm transformation can be useful to make the peak intensity variance independent of the intensity mean (see for example Veselkov et al, 2011). For the logarithm transformations, log(1+X) is used (to avoid returning -Inf for 0 values); NA values remain unchanged

Key features

• Datamatrix.
• Intensity.

Functionality

• Statistical Analysis

Approaches

• Metabolomics / Targeted
• Metabolomics / Untargeted

Data Analysis

• Statistics

Screenshots

Tool Authors

• Étienne Thévenot (CEA, LIST, MetaboHUB).

Container Contributors

• Pierrick Roger (CEA).

Website

• http://workflow4metabolomics.org

Git Repository

• https://github.com/phnmnl/container-transformation.git

Installation

For local individual installation:

docker pull docker-registry.phenomenal-h2020.eu/phnmnl/transformation

Usage Instructions

For direct docker usage:

docker run docker-registry.phenomenal-h2020.eu/phnmnl/transformation ...

Publications

• Veselkov et al (2011). Optimized Preprocessing of Ultra-Performance Liquid Chromatography/Mass Spectrometry Urinary Metabolic Profiles for Improved Information Recovery. Analytical Chemistry, 83:5864-5872. http://dx.doi.org/10.1021/ac201065j