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La formation couvre les grandes étapes d'un pipeline d'analyse bioinformatique sous Galaxy (FROGS) pour transformer les séquences en tables d'abondances puis présente des outils statistiques sous R (phyloseq) qui permettent de décrire et comparer les échantillons à partir de ces tables.\n\n \nProgramme\n\nJours 1 et 2 : Analyses Bioinformatiques sous Galaxy\nIntroduction générale\nBrefs rappels sur l'environnement Galaxy\nPrésentation des données issues des différentes technologies de séquençage\nPrétraitement des données\nClustering des séquences, construction des OTUs\nDétection de chimères\nAnnotation taxonomique\nFiltrage des données de comptages\nOutils de visualisation\nConstruction de workflow et configuration de FROGS\nLimite des données et des méthodes \nJour 3 et 4 :  Analyses Statistiques sous Rstudio\nIntroduction générale\nImport, manipulation et visualisation des données\nMesure de diversités : Unifrac, Bray-Curtis, etc.\nOrdination et réduction de dimension : MDS\nClustering et Heatmap\nComparaison d'échantillons : PERMANOVA, adonis\n▫ Introduction générale\n▫ Brefs rappels sur l'environnement Galaxy\n▫ Présentation des données issues des différentes technologies de séquençage ▫ Prétraitement des données\n▫ Clustering des séquences, construction des OTUs\n▫ Détection de chimères\n▫ Annotation taxonomique\n▫ Filtrage des données de comptages\n▫ Outils de visualisation\n▫ Construction de workflow et configuration de FROGS\n▫ Limite des données et des méthodes\n\n\n\n\n\nJour 3 : Analyses Statistiques sous Rstudio\n\n\t▫  Introduction générale\n\t\n\n\t▫  Import et manipulation des données\n\t\n\n\t▫  Mesure de diversités : Unifrac, Bray-Curtis, etc.\n\t\n\n\t▫  Ordination et réduction de dimension : MDS\n\t\n\n\t▫  Clustering et Heatmap\n\t\n\n\t▫  Comparaison d'échantillons : PERMANOVA, adonis \n\t\n\n\n\n\n\n\n\n\n","homepage":"http://migale.jouy.inra.fr/","is_draft":false,"costs":[],"topics":[],"keywords":["NGS Data Analysis","Metagenomics","Galaxy"],"prerequisites":[],"openTo":"Internal personnel","accessConditions":"Ce cycle est ouvert à l'ensemble des agents de l'INRA et aux extérieurs.\n","maxParticipants":null,"contacts":[],"elixirPlatforms":[],"communities":[],"sponsoredBy":[],"organisedByOrganisations":[],"organisedByTeams":[],"logo_url":"","updated_at":"2022-06-02T11:50:50.627601Z","type":"Training course","start_date":"2017-03-26","end_date":null,"venue":"","city":"","country":"","geographical_range":"","trainers":[],"trainingMaterials":[],"computingFacilities":[],"realisation_status":"past","registration_opening":null,"registration_closing":null,"registration_status":"unknown","courseMode":null},{"id":572,"name":"Analyse de données métagénomiques shotgun / shotgun metagenomics (2024 session)","shortName":"Shotgun metagenomics (2024)","description":"Objectifs pédagogiques\r\n\r\nCette formation est dédiée à l’analyse de données métagénomiques procaryotes de type « shotgun » issues de la technologie de séquençage Illumina. 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suburbs)\r\n\r\nRER C Line: Get off at the Jouy-en-Josas station. 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