metaXCMS

- Deprecated

Version: 0.1.20

Website

https://xcmsonline.scripps.edu/landing_page.php?pgcontent=mainPage

Description

Designed for use in conjunction with XCMS and performs meta (second order) analysis for data reduction. Once data is loaded, the control group for each experiment is verified. After this features are filtered by either fold change, p-value or predefined list of up and down regulation. Features from separate experiments are then aligned by m/z and rt using the 'group.nearest' algorithm from XCMS. Any number of experiments can be compared using this method, but only 5 or less can be visualised using a VENN diagram, showing common features. Data then re-undergo retention time correction, using the OBI-Warp method, to verify results. metaXCMS is currently only available online as part of the XCMS Online software.

Functionality

• Statistical Analysis

Instrument Data Type

• MS/LC-MS

Approaches

• Untargeted

Computer Skills

Advanced

Software Type

R Package

Interface

Command line interface

Operating System (OS)

• Unix/Linux
• Mac OS
• Windows

Language

R

Dependencies

GTK+, cairoDevice, RGtk2, gstat, RANN, xlsx, xcms, Biobase

Input Formats - Open

XCMS output

Input Formats - Proprietary

N/A

Published

2010

Last Updated

2012

License

Paper

http://www.ncbi.nlm.nih.gov/pubmed/22343432

PMID

22343432