HOW TO

Community forum:

For any questions or support: community.france-bioinformatique.fr/c/workflow4metabolomics/

 

Galaxy training network: https://training.galaxyproject.org/training-material/topics/metabolomics/

 

"How to" short notes:

  • What is the 3 tables format ? [PDF]
  • How to search in GCMS Data? [PDF]

 

W4E 2021/22 - Toulouse (INRAE -Toxalim)

 

W4E 2020 - Bruxelles (Université Libre de Bruxelles - BOZAR):

 

W4E 2018 - Paris (Pasteur Institute):

SessionPresentationAuthor(s)PDF
Day 1: Welcome and IntroductionIntroductionYann GuittonN/A
 Galaxy initiation and data managementGildas Le CorguilléDownload
 MS Data conversionYann GuittonDownload
Day 2: Metabolomics data PreprocessingLC-MS data preprocessingJean-Francois MartinDownload
 LC-MS annotation with CAMERAYann GuittonDownload
 GC-MS data preprocessingYann GuittonDownload
 NMR data preprocessingMarie Tremblay-Franco, Cécile CanletDownload
 Signal drift and batch effect correctionMélanie PétéraDownload
Day 3: StatisticsUnivariate modelingMarie Tremblay-FrancoDownload
 Multivariate modelingEtienne ThévenotDownload
 Multi Level AnalysisYann GuittonDownload
 Day 4: AnnotationLC/GC-MS AnnotationYann GuittonDownload
 Databases in AnnotationFranck GiacomoniDownload
 NMR AnnotationMarie Tremblay-Franco, Cécile CanletDownload
Day 5: "Go Further session"W4M and perspectivesEtienne Thévenot
Yann Guitton
Marie Tremblay-Franco
Cécile Canlet
Franck Giacomoni
Julien Saint-Vanne
Download



 

 

 

 

W4E 2017 - Paris :

sessionpresentationsAuthor(s)PDF
Day 1: IntroductionIntroduction to the courseChristophe Caron, W4M Core Team 
 Galaxy initiationGildas Le CorguilléDownload
Day 2: PreprocessingLC-MS data preprocessingJean-Francois MartinDownload
 LC-MS annotation with CAMERAYann GuittonDownload
 GC-MS data preprocessingYann GuittonDownload
 NMR data preprocessingMarie Tremblay-Franco, Cécile Canlet, Manon MartinDownload
Day 3: StatisticsFiltering and correcting dataMélanie PeteraDownload
 Univariate satisticsMarie Tremblay-FrancoDownload
 Multivariate modelingEtienne ThévenotDownload
 Multi Level AnalysisYann GuittonDownload
 Day 4: AnnotationDatabasesFranck GiacomoniDownload
 NMR AnnotationMarie Tremblay-Franco, Cécile CanletDownload
 Referencing HistoriesEtienne ThévenotDownload

 

 

 

W4E 2016 :

W4E courses 2016Author(s)PDF
Course presentationChristophe Caron, W4M Core Team 
Initiation GalaxyGildas Le CorguilléDownload
LC-MS - Pre-processing (xcms) JF MartinDownload
GC-MS - ProcessingY. GuittonDownload
 MS data processing - Filtering and correcting data Mélanie PeteraDownload
 Statiscal Workflows Etienne Thévennot, Marie Tremblay-FrancoDownload
 NMR Annotation M. Tremblay-Franco, C. CanletDownload
 NMR - Pre-processing M. Tremblay-Franco, C. CanletDownload
   
   

 

W4E 2015

 

W4M courses 2015Author(s)PDF
Course presentationChristophe Caron, Franck GiacomoniDownload
InitiationGildas Le Corguillé, Misharl Monsoor, Marion LandiDownload
LC-MS - Pre-processing (xcms)W4M Core TeamDownload
MS data processing - Filtering and correcting dataW4M Core TeamDownload
Using Galaxy4Metabolomics - W4M table format for GalaxyW4M Core TeamDownload
How to check the format of the 3 .tsv tablesEtienne ThévenotDownload
How to perform statistical analysis ? - IntroductionEtienne Thévenot, Marie Tremblay-Franco, Mélanie Pétéra, Gildas Le CorguilléDownload
How to perform statistical analysis ? - Exploratory data analysisEtienne Thévenot, Mélanie Pétéra, Jean-François Martin, Gildas Le CorguilléDownload
How to perform statistical analysis ? - PCA analysis and (O)PLS(-DA) modellingEtienne ThévenotDownload
Les banques d'annotation - AnnotationYann Guitton, Franck GiacomoniDownload

 

HOWTO

 

CATEGORYFIELDDescriptionPDF
Galaxy Prepare input datasetsDownload
Galaxy Use single files as input and run xcmsSet in parallelDownload video
Galaxy Import datasetsDownload
Galaxy Cleanup datasetsDownload
Galaxy Build And Configure A WorkflowDownload
Galaxy Share Histories And WorkflowsDownload
Galaxy Export/Import Workflows&HistoriesDownload
    
PreprocessingLC-MSPerform Preprocessing using XCMSDownload
    
Quality ControlCommonFormat Data For PostprocessingDownload
    
Batch correctionLC-MS and GC-MSPerform Drift And Batch CorrectionDownload
    
StatisticsCommonPerform Univariate AnalyzesDownload
StatisticsCommonPerform Multivariate AnalyzesDownload
    
AnnotationLC-MSPerform LCMS AnnotationsDownload
AnnotationGC-MSUse NISTDownload