.. El MAVEN User Documentation documentation master file, created by
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User Documentation
==================

Welcome to the El-MAVEN user documentation!

El-MAVEN is an open source LC-MS data processing engine that is optimal for isotopomer labeling and untargeted metabolomic profiling experiments. Currently El-MAVEN exists as a desktop application that runs on Windows, Ubuntu and MacOS. The software can be used to view the mass spectra, align chromatograms, perform peak-feature detection and alignment for labeled and unlabeled mass spectrometry data. The aim of this software package is to reduce complexity of metabolomics analysis by using a highly intuitive interface for exploring and validating metabolomics data.

Find out more about the software through the links below.

Introduction
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.. toctree::
   :maxdepth: 2
   
   GitRepository

Getting Started
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.. toctree::
   :maxdepth: 2

   IntroductiontoElMAVENUI
   IntroductiontoElMAVENCLI

Tutorials
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.. toctree::
   :maxdepth: 2

   UnlabeledLCMSWorkflow
   LabeledLCMSWorkflow
   LabeledLCMSMSWorkflow

Validation
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.. toctree::
   :maxdepth: 2

   LabeledMSMSValidation