Processing Metabolomics and Proteomics Data with Open Software (eBook, PDF)

A Practical Guide
Redaktion: Winkler, Robert

• Format: PDF

Produktbeschreibung

Metabolomics and proteomics allow deep insights into the chemistry and physiology of biological systems. This book expounds open-source programs, platforms and programming tools for analysing metabolomics and proteomics mass spectrometry data. In contrast to commercial software, open-source software is created by the academic community, which facilitates the direct interaction between users and developers and accelerates the implementation of new concepts and ideas. The first section of the book covers the basics of mass spectrometry, experimental strategies, data operations, the open-source philosophy, metabolomics, proteomics and statistics/ data mining. In the second section, active programmers and users describe available software packages. Included tutorials, datasets and code examples can be used for training and for building custom workflows. Finally, every reader is invited to participate in the open science movement.

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Produktdetails

• Verlag: Royal Society of Chemistry
• Seitenzahl: 430
• Erscheinungstermin: 16. März 2020
• Englisch
• ISBN-13: 9781788019880
• Artikelnr.: 70074813

Inhaltsangabe

Introduction
Mass Spectrometry Data Operations and Workflows
Metabolomics
Proteomics
Statistics, Data Mining and Modeling
OpenMS and KNIME for Mass Spectrometry Data Processing
Metabolomics Data Analysis Using MZmine
Pre-processing and Analysis of Metabolomics Data with XCMS/R and XCMS Online
Statistical Evaluation and Integration of Multi-omics Data with MetaboAnalyst
Modular metaX Pipeline for Processing Untargeted Metabolomics Data
Metabolite Annotation With CEU Mass Mediator
Metabolite Annotation Using In Silico Generated Compounds: MINE and BioTransformer
Trans-Proteomic Pipeline for the Identification, Validation, and Quantification of Proteins
Quantitative Proteomics Data Analysis with PANDA, LFAQ and PANDA-view
Proteomic Workflows with R/R Markdown
Python in Proteomics
Mass Spectrometry Development Kit (MSDK): a Java Library for Mass Spectrometry Data Processing
MASSyPup64: Linux Live System for Mass Spectrometry Data Processing
Cross-platform Software Development and Distribution with Bioconda and BioContainers
Concluding Remarks and Perspectives