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No specific bioinformatics skill is required: detailed instruction on the algorithm developed in each annotation methods can be found in specific training courses on «Genomic sequences analysis». Here we focus on the general idea behind each method and, above all, the way you can interpret the corresponding results and combine them with other evidences in order to change or correct the current automatic functional annotation of a given gene, if necessary.\r\n\r\nThis course will also describe how to perform effective searches and analysis of procaryotic data using the graphical functionalities of the MaGe’s interfaces. 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Savoir mettre en œuvre une comparaison de génomes et en interpréter les résultats.\r\n\r\nProgramme\r\n* Construction d’un jeu de données :\r\n* Téléchargement de données publiques\r\n* Evaluation de la qualité\r\n* Caractérisation de la diversité génomique\r\n* Stratégies de comparaison :\r\n* Construction de famille de protéines\r\n* Alignement de génomes complets\r\n* Analyse des résultats :\r\n   o Notion de core et pan-génome\r\n   o Notions élémentaires de phylogénomique\r\n   o Visualisation et interprétation des résultats\r\n* Mise en pratique sur un jeu de données bactériens, utilisation des logiciels dRep et Roary sous Galaxy.","homepage":"https://documents.migale.inrae.fr/trainings.html","is_draft":false,"costs":["Priced"],"topics":["http://edamontology.org/topic_3299","http://edamontology.org/topic_0622"],"keywords":["Comparative genomics"],"prerequisites":[],"openTo":"Everyone","accessConditions":"","maxParticipants":10,"contacts":["https://catalogue.france-bioinformatique.fr/api/userprofile/769/?format=json"],"elixirPlatforms":[],"communities":[],"sponsoredBy":[],"organisedByOrganisations":[{"id":82,"name":"INRAE","url":"https://catalogue.france-bioinformatique.fr/api/organisation/INRAE/?format=json"},{"id":88,"name":"BioinfOmics","url":"https://catalogue.france-bioinformatique.fr/api/organisation/BioinfOmics/?format=json"}],"organisedByTeams":[{"id":10,"name":"MIGALE","url":"https://catalogue.france-bioinformatique.fr/api/team/MIGALE/?format=json"}],"logo_url":"https://migale.inrae.fr/sites/default/files/migale-orange_0.png","updated_at":"2024-01-18T14:16:08.617035Z","type":"Training course","start_date":"2024-05-24","end_date":"2024-05-24","venue":"https://migale.inrae.fr/how-to-come","city":"Jouy-en-Josas","country":"France","geographical_range":"","trainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/396/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/116/?format=json"],"trainingMaterials":[],"computingFacilities":[],"realisation_status":"past","registration_opening":"2024-01-08","registration_closing":"2024-05-10","registration_status":"closed","courseMode":"Onsite"},{"id":784,"name":"Introduction aux bonnes pratiques pour des analyses reproductibles - 2026","shortName":"Good practices for better reproducibility of analyses 2026","description":"Objectifs pédagogiques\r\n\r\nL’objectif de cette formation est d’initier les apprenants aux bonnes pratiques pour la reproductibilité des analyses. Ils apprendront à rédiger des rapports d’analyse en R Markdown et à les déposer sur un dépôt GitHub. Les principes FAIR (faciles à trouver, accessibles, interopérables et réutilisables) et les bases de la rédaction de PGD (plans de gestion de données) seront également présentés. 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Les progrès accomplis ont\r\nconsidérablement augmenté les possibilités expérimentales dans des domaines tels que la génomique (séquençage de\r\nnouveaux génomes, variants génétiques), la transcriptomique (expression génétique, ARNs non codants) et les\r\ninteractions ADN-protéine (immuno-précipitation de chromatine) et modifications de la chromatine. AVIESAN organise\r\nune troisième session de cette école dont les objectifs sont d’apporter aux biologistes des notions et une pratique leur\r\npermettant d’appréhender le traitement et l’analyse des données de séquençage à haut débit en utilisant un\r\nenvironnement logiciel convivial : Galaxy.\r\nL’école comportera des séminaires introductifs, des cours et des travaux pratiques consacrés à l’initiation au traitement\r\ndes données de transcriptome (RNA-seq), d’interactome (ChIP-seq) et de variations génomiques (SNP, CNV). Les\r\nparticipants disposant de données pourront discuter de leur plan d’analyse et effectuer les premières étapes de\r\ntraitement de leurs données au cours de la dernière journée.\r\nL’école est une initiation à l’utilisation des outils bioinformatiques dans un environnement Galaxy, plateforme dédiée à\r\nl’analyse des données de séquençage à haut débit. Cette formation est destinée aux biologistes (chercheurs,\r\ndoctorants, enseignants-chercheurs, ingénieurs, …) ayant déjà utilisé ou souhaitant utiliser ce type de données.","homepage":"https://aviesan.fr/fr/aviesan/accueil/toute-l-actualite/itmo-ggb-3e-ecole-de-bioinformatique-initiation-au-traitement-des-donnees-de-genomique-obtenues-par-sequencage-a-haut-debit","is_draft":false,"costs":["Priced"],"topics":[],"keywords":["Biostatistics","Sequence analysis","NGS Sequencing Data Analysis"],"prerequisites":[],"openTo":"Everyone","accessConditions":"","maxParticipants":40,"contacts":["https://catalogue.france-bioinformatique.fr/api/userprofile/207/?format=json"],"elixirPlatforms":[],"communities":[],"sponsoredBy":[{"id":3,"name":"IFB","url":"https://catalogue.france-bioinformatique.fr/api/eventsponsor/IFB/?format=json"},{"id":13,"name":"Aviesan","url":"https://catalogue.france-bioinformatique.fr/api/eventsponsor/Aviesan/?format=json"}],"organisedByOrganisations":[{"id":53,"name":"AVIESAN","url":"https://catalogue.france-bioinformatique.fr/api/organisation/AVIESAN/?format=json"},{"id":4,"name":"IFB - ELIXIR-FR","url":"https://catalogue.france-bioinformatique.fr/api/organisation/IFB%20-%20ELIXIR-FR/?format=json"}],"organisedByTeams":[{"id":10,"name":"MIGALE","url":"https://catalogue.france-bioinformatique.fr/api/team/MIGALE/?format=json"},{"id":14,"name":"BiGEst","url":"https://catalogue.france-bioinformatique.fr/api/team/BiGEst/?format=json"},{"id":4,"name":"ABiMS","url":"https://catalogue.france-bioinformatique.fr/api/team/ABiMS/?format=json"},{"id":29,"name":"IFB Core","url":"https://catalogue.france-bioinformatique.fr/api/team/IFB%20Core/?format=json"}],"logo_url":"https://ressources.france-bioinformatique.fr/sites/default/files/EBA2016_0_1_1_0.jpg","updated_at":"2022-06-02T11:50:50.627601Z","type":"Training course","start_date":"2014-10-05","end_date":"2014-10-10","venue":"Station Biologique","city":"Roscoff","country":"France","geographical_range":"","trainers":[],"trainingMaterials":[],"computingFacilities":[],"realisation_status":"past","registration_opening":null,"registration_closing":"2014-06-27","registration_status":"closed","courseMode":"Onsite"},{"id":480,"name":"Initiation à R / R Initiation - 2022 Session 1","shortName":"R Initiation - 2022 S1","description":"Objectifs\r\n- Savoir utiliser les commandes de base pour la manipulation et la description de jeux de données\r\ntabulés\r\n- Être capable de suivre le module R avancé\r\nProgramme\r\n- Introduction au langage R sous l’environnement Rstudio.\r\n- Premières additions.\r\n- Importation/exportation de données tabulées.\r\n- Manipulation d’objets plus complexes : vector, factor, matrice, data.frame, list\r\n- Fonctions mathématiques : sum, min, max, mean, mediane, log2\r\n- Fonctions propres à R pour la manipulation de tableaux : subset, apply, table, match, %in%\r\n- Les graphiques : plot, barplot, boxplot, points, lines …","homepage":"http://abims.sb-roscoff.fr/training/courses","is_draft":false,"costs":["Free"],"topics":["http://edamontology.org/topic_2269"],"keywords":[],"prerequisites":[],"openTo":"Everyone","accessConditions":"","maxParticipants":16,"contacts":["https://catalogue.france-bioinformatique.fr/api/userprofile/299/?format=json"],"elixirPlatforms":[],"communities":[],"sponsoredBy":[],"organisedByOrganisations":[],"organisedByTeams":[{"id":4,"name":"ABiMS","url":"https://catalogue.france-bioinformatique.fr/api/team/ABiMS/?format=json"}],"logo_url":"https://abims.sb-roscoff.fr/sites/default/files/abims.png","updated_at":"2022-06-02T11:50:50.627601Z","type":"Training course","start_date":"2022-05-02","end_date":null,"venue":"https://www.sb-roscoff.fr/fr/station-biologique-de-roscoff/services/venir-a-la-sbr","city":"Roscoff","country":"France","geographical_range":"National","trainers":[],"trainingMaterials":[],"computingFacilities":[],"realisation_status":"past","registration_opening":"2022-03-09","registration_closing":"2022-04-10","registration_status":"closed","courseMode":"Onsite"},{"id":481,"name":"Statistiques avec R / Statistics with R - 2022 Session 1","shortName":"R - Stats - 2022 S1","description":"Objectifs\r\n- Choisir un test statistique adapté à un problème donné.\r\n-\r\nImporter des données et réaliser un test avec R.\r\nProgramme\r\n- Théorie : modèle, loi de distribution, hypothèse H0, variable de test, p-value, tests multiples, FDR\r\n- Pratique : réalisation de tests sous R dans un environnement convivial (RStudio)\r\n-\r\ntests usuels simples : Gauss, Student, χ2\r\n-\r\ntests multiples : ANOVA, correction (ex. 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Cartes Michelin 82 et 245.\r\nAvion : Nice (70 km), Toulon (90 km), Marseille (140 km).\r\n\r\nTransfert : Navettes depuis la gare de St Raphael. Taxis depuis l’aéroport de\r\nNice (sur réservation).\r\n\r\nCAES du CNRS\r\nLa Villa Clythia\r\n2754, rue Henri Giraud\r\n83600 Fréjus","city":"Fréjus","country":"France","geographical_range":"National","trainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/556/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/762/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/756/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/750/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/237/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/657/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/722/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/146/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/721/?format=json","https://catalogue.france-bioinformatique.fr/api/userprofile/116/?format=json"],"trainingMaterials":[],"computingFacilities":[],"realisation_status":"past","registration_opening":"2022-09-12","registration_closing":"2022-10-12","registration_status":"closed","courseMode":"Onsite"},{"id":405,"name":"4th Workshop Single-Cell / SincellTE 2022 / Single-Cell : Transcriptomics, Spatial and Multi-Omics","shortName":"SincellTE 2022","description":"This workshop focuses on the large-scale study of heterogeneity across individual cells from a genomic, transcriptomic and epigenomic point of view. New technological developments enable the characterization of molecular information at a single cell resolution for large numbers of cells. The high dimensional omics data that these technologies produce raise novel methodological challenges for the analysis. In this regard, dedicated bioinformatics and statistical methods have been developed in order to extract robust information.\r\n\r\nThe workshop aims to provide such methods for engineers and researchers directly involved in functional genomics projects making use of single-cell technologies. A wide range of single cell topics will be covered in lectures, demonstrations and practical classes. Among others, the areas and issues to be addressed will include the choice of the most appropriate single-cell sequencing technology, the experimental design and the bioinformatics and statistical methods and pipelines. For this edition, new courses/practicals will focus on spatial transcriptomics, cell phenotyping and additional multi-omics.\r\n\r\nA wide range of single cell topics will be covered in lectures, demonstrations and practical classes. Among others, the areas and issues to be addressed will include the choice of the most appropriate single-cell sequencing technology, the experimental design and the bioinformatics and statistical methods and pipelines. For this edition, new courses/practicals will focus on spatial transcriptomics, cell phenotyping and additional multi-omics.\r\n\r\nRequirements : Participants must have prior experience on NGS data analysis  with everyday use of R and good knowledge of Unix command line. 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