SimExTargId: a comprehensive package for real-time LC-MS data acquisition and analysis.

ABSTRACT:

Summary

Liquid chromatography mass spectrometry (LC-MS) is the favored method for untargeted metabolomic analysis of small molecules in biofluids. Here we present SimExTargId, an open-source R package for autonomous analysis of metabolomic data and real-time observation of experimental runs. This simultaneous, fully automated and multi-threaded (optional) package is a wrapper for vendor-independent format conversion (ProteoWizard), xcms- and CAMERA- based peak-picking, MetMSLine-based pre-processing and covariate-based statistical analysis. Users are notified of detrimental instrument drift or errors by email. Also included are two shiny applications, targetId for real-time MS2 target identification, and peakMonitor to monitor targeted metabolites.

Availability and implementatio

SUBMITTER: Edmands WMB 

PROVIDER: S-EPMC6184452 | biostudies-literature | 2018 Oct

REPOSITORIES: biostudies-literature