Training List
Handles creating, reading and updating training events.
GET /api/training/?format=api&offset=220&ordering=name
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Nous proposons au personnel non-bioinformaticien de les accompagner dans la prise en main de ces étapes en utilisant la plateforme de bio-analyse Galaxy. \r\n\r\nAprès une introduction à la métagénomique, une session pratique sur la plateforme Galaxy couvrira comment :\r\n- assigner des taxons à des données de métagénomiques,\r\n- visualiser une communauté microbienne à partir d’assignations taxonomiques", "homepage": "", "is_draft": false, "costs": [ "Free to academics" ], "topics": [ "http://edamontology.org/topic_3697", "http://edamontology.org/topic_3174", "http://edamontology.org/topic_0637" ], "keywords": [ "Galaxy" ], "prerequisites": [ "Galaxy - Basic usage" ], "openTo": "Internal personnel", "accessConditions": "Formation ouverte au personnel de l’UCA & Associés\r\nAvoir un ordinateur portable et un accès wifi eduroam\r\nAvoir un compte sur la plateforme Galaxy (Faire une demande le cas échéant sur hub.mesocentre.uca.fr)\r\nÊtre familier avec Galaxy", "maxParticipants": null, "contacts": [ "https://catalogue.france-bioinformatique.fr/api/userprofile/261/?format=api", "https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=api" ], "elixirPlatforms": [], "communities": [], "sponsoredBy": [ { "id": 1, "name": "CNRS - IFB", "url": "https://catalogue.france-bioinformatique.fr/api/eventsponsor/CNRS%20-%20IFB/?format=api" }, { "id": 16, "name": "Université Clermont Auvergne", "url": "https://catalogue.france-bioinformatique.fr/api/eventsponsor/Universit%C3%A9%20Clermont%20Auvergne/?format=api" } ], "organisedByOrganisations": [ { "id": 87, "name": "AuBi", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/AuBi/?format=api" }, { "id": 96, "name": "Mésocentre Clermont-Auvergne", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/M%C3%A9socentre%20Clermont-Auvergne/?format=api" } ], "organisedByTeams": [ { "id": 31, "name": "AuBi", "url": "https://catalogue.france-bioinformatique.fr/api/team/AuBi/?format=api" } ], "logo_url": "https://mesocentre.uca.fr/medias/photo/logoaubi-2019minus_1553844844490-jpg?ID_FICHE=41175", "updated_at": "2024-02-08T11:23:11.090144Z", "audienceTypes": [ "Undergraduate", "Graduate", "Professional (initial)", "Professional (continued)" ], "audienceRoles": [ "Researchers", "Life scientists", "Biologists" ], "difficultyLevel": "Novice", "trainingMaterials": [ { "id": 130, "name": "Taxonomic Profiling and Visualization of Metagenomic Data", "url": "https://catalogue.france-bioinformatique.fr/api/trainingmaterial/Taxonomic%20Profiling%20and%20Visualization%20of%20Metagenomic%20Data/?format=api" } ], "learningOutcomes": "At the end of the tutorial, learners would be able to:\r\n- Explain what taxonomic assignment is\r\n- Explain how taxonomic assignment works\r\n- Apply Kraken and MetaPhlAn to assign taxonomic labels\r\n- Apply Krona and Pavian to visualize results of assignment and understand the output\r\n- Identify taxonomic classification tool that fits best depending on their data", "hoursPresentations": 1, "hoursHandsOn": 2, "hoursTotal": 3, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/599/?format=api" ] }, { "id": 363, "name": "Introduction au text-mining avec AlvisNLP", "shortName": "Introduction to text-mining with AlvisNLP", "description": "Objectifs pédagogiques\r\nCette formation est dédiée à l’analyse de données textuelles (text-mining). L’objectif est l’acquisition des principales techniques pour la Reconnaissance d’Entités Nommées (REN) à partir de textes. Les entités nommées étudiées dans cette formation sont des objets ou concepts d’intérêts mentionnés dans les articles scientifiques ou les champs en texte libre (taxons, gènes, protéines, marques, etc.).\r\n\r\nLes participants vont acquérir les compétences pratiques nécessaires pour effectuer de façon autonome une première approche pour une application de text-mining. Le format est celui de Travaux Pratiques utilisant AlvisNLP, un outil pour la création de pipelines en text-mining développé par l’équipe Bibliome de l’unité MaIAGE. La formation s’adresse à des chercheurs et ingénieurs en (bio)-informatique ou en maths-info-stats appliquées\r\n\r\nProgramme\r\n* Présentation du text-mining et de la Reconnaissance des Entités Nommées (REN)\r\n* Travaux Pratiques sur des techniques de REN en utilisant AlvisNLP\r\n* Projection de lexiques\r\n* Application de patrons\r\n* Apprentissage automatique", "homepage": "https://documents.migale.inrae.fr/trainings.html", "is_draft": false, "costs": [ "Priced" ], "topics": [ "http://edamontology.org/topic_0605", "http://edamontology.org/topic_3474" ], "keywords": [ "Text mining" ], "prerequisites": [ "Linux - Basic Knowledge" ], "openTo": "Everyone", "accessConditions": "", "maxParticipants": 10, "contacts": [ "https://catalogue.france-bioinformatique.fr/api/userprofile/769/?format=api" ], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [ { "id": 82, "name": "INRAE", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/INRAE/?format=api" }, { "id": 88, "name": "BioinfOmics", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/BioinfOmics/?format=api" } ], "organisedByTeams": [ { "id": 10, "name": "MIGALE", "url": "https://catalogue.france-bioinformatique.fr/api/team/MIGALE/?format=api" } ], "logo_url": "https://migale.inrae.fr/sites/default/files/migale-orange_0.png", "updated_at": "2024-01-18T14:56:19.822106Z", "audienceTypes": [ "Professional (continued)" ], "audienceRoles": [ "Life scientists", "Biologists", "Bioinformaticians" ], "difficultyLevel": "Novice", "trainingMaterials": [], "learningOutcomes": "Cette formation est dédiée à l’analyse de données textuelles (text-mining). L’objectif est l’acquisition des principales techniques pour la Reconnaissance d’Entités Nommées (REN) à partir de textes. Les entités nommées étudiées dans cette formation sont des objets ou concepts d’intérêts mentionnés dans les articles scientifiques ou les champs en texte libre (taxons, gènes, protéines, marques, etc.).\r\n\r\nLes participants vont acquérir les compétences pratiques nécessaires pour effectuer de façon autonome une première approche pour une application de text-mining. Le format est celui de Travaux Pratiques utilisant AlvisNLP, un outil pour la création de pipelines en text-mining développé par l’équipe Bibliome de l’unité MaIAGE. La formation s’adresse à des chercheurs et ingénieurs en (bio)-informatique ou en maths-info-stats appliquées", "hoursPresentations": 5, "hoursHandsOn": 7, "hoursTotal": 12, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/588/?format=api", "https://catalogue.france-bioinformatique.fr/api/event/680/?format=api" ] }, { "id": 354, "name": "Introduction aux bonnes pratiques pour des analyses reproductibles", "shortName": "Good practices for better reproducibility of analyses", "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. Durant la formation, nous utiliserons RStudio et GitHub.\r\n\r\nProgramme\r\n\r\nPrincipes et enjeux de la recherche reproductible\r\nUtilisation de GitHub\r\nGestion des versions d’un document\r\nRédaction de document computationnel\r\nPartage d’un rapport avec ses collaborateurs\r\nPrincipes FAIR et PGD", "homepage": "https://documents.migale.inrae.fr/trainings.html", "is_draft": false, "costs": [ "Priced" ], "topics": [ "http://edamontology.org/topic_0605" ], "keywords": [ "Reproducibility" ], "prerequisites": [], "openTo": "Everyone", "accessConditions": "", "maxParticipants": 10, "contacts": [ "https://catalogue.france-bioinformatique.fr/api/userprofile/769/?format=api" ], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [ { "id": 82, "name": "INRAE", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/INRAE/?format=api" }, { "id": 88, "name": "BioinfOmics", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/BioinfOmics/?format=api" } ], "organisedByTeams": [ { "id": 10, "name": "MIGALE", "url": "https://catalogue.france-bioinformatique.fr/api/team/MIGALE/?format=api" } ], "logo_url": "https://migale.inrae.fr/sites/default/files/migale-orange_0.png", "updated_at": "2024-01-18T13:15:23.269149Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "Novice", "trainingMaterials": [], "learningOutcomes": "L’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. Durant la formation, nous utiliserons RStudio et GitHub.", "hoursPresentations": 2, "hoursHandsOn": 4, "hoursTotal": 6, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/573/?format=api", "https://catalogue.france-bioinformatique.fr/api/event/693/?format=api" ] }, { "id": 39, "name": "Introduction to bioinformatics for 1st year Master in integrative Plant Biology, Strasbourg University", "shortName": "", "description": "2H / year of hands-on introduction to bioinformatics for 1st year Master in integrative Plant Biology, Strasbourg University\n", "homepage": "", "is_draft": false, "costs": [], "topics": [], "keywords": [], "prerequisites": [ "Master (M1 uniquement)" ], "openTo": "Internal personnel", "accessConditions": "", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 4, "name": "Introduction to data analysis with R", "shortName": "", "description": "The program includes an introduction:\nApproaches in biostatistics and research, explaining to participants the principles, methodologies, use of statistical methods and applications in biology and clinical research.\nCourses on software R will be delivered in the form of additional exercises. The basis of the programming language R will be discussed and statistical approaches presented in the theoretical part will be implemented.\nApplication of skills acquired over a personal dataset\n", "homepage": "", "is_draft": false, "costs": [], "topics": [], "keywords": [ "Programming Languages & Computer Sciences", "R Language" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "Aucune\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 289, "name": "Introduction to galaxy: looking for variants in prokaryotes", "shortName": "Introduction to galaxy", "description": "This course will focus on the technical aspects of using a galaxy server. Accessible without any prerequisite in computer science, it will allow you to master the different fundamental tools of galaxy and will open the doors of bioinformatics analysis for your different projects.\r\nDifferent questions will be addressed through an example of variants analysis in a prokaryotic organism. At the end of this course, on any accessible galaxy instance, you will be able to:\r\n- upload your data\r\n- map them on a reference genome\r\n- find the variants (SNPs) and analyze the results\r\n- generate, manipulate and share your workflows, data and histories\r\n- find the right tools for other analyses and use them in your own project.\r\n\r\nUnless all participants speak French, the course will be taught in English.", "homepage": "https://pliniuscursus.univ-amu.fr/formation/galaxy-platform/", "is_draft": false, "costs": [ "Free to academics" ], "topics": [ "http://edamontology.org/topic_0091", "http://edamontology.org/topic_0622" ], "keywords": [], "prerequisites": [ "Master" ], "openTo": "Internal personnel", "accessConditions": "The first sessions are only available for IM2B students.", "maxParticipants": 12, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [ { "id": 23, "name": "PACA-Bioinfo", "url": "https://catalogue.france-bioinformatique.fr/api/team/PACA-Bioinfo/?format=api" } ], "logo_url": null, "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [ "Graduate" ], "audienceRoles": [ "Biologists" ], "difficultyLevel": "Novice", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": 1, "hoursHandsOn": 5, "hoursTotal": 6, "personalised": null, "event_set": [] }, { "id": 252, "name": "Introduction to High-performance computing", "shortName": "", "description": "This course offers an introduction on how to work with HPC Southgreen clusters. It is intended for new users, with the goals of improving user productivity and minimizing the obstacles. The HPC Southgreen cluster are presented, together with the tools to be able to use it. Module load notion, interactive usage and batch jobs submittions will be developped.\nPrerequisites\nLinux Basics\n\nProgram\nIntroduction to HPCs architecture\nDiscover Sun grid Engine (SGE)\nData Management on clusters\nInteractive Usage\nSubmit batch jobs\n\n\nLearning objectives\nAfter this course, participants should be able to:\nUse the HPC resources interactively\nManage data copies\nUse module load\nsubmit batch jobs\n\n\nInstructors\n\n\nNdomassi Tando (NT) - ndomassi.tando@ird.fr\nBertrand Pitollat(BP) - bertrand.pitollat@cirad.fr\nAlexis Dereeper (AD) - alexis.dereeper@ird.fr\n\n", "homepage": "https://southgreenplatform.github.io/trainings//HPC/", "is_draft": false, "costs": [ "Free" ], "topics": [], "keywords": [], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [ { "id": 24, "name": "South Green", "url": "https://catalogue.france-bioinformatique.fr/api/team/South%20Green/?format=api" } ], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/384/?format=api" ] }, { "id": 288, "name": "Introduction to Linux", "shortName": "BirdLinux", "description": "Objectives\r\n- Understand the principles and advantages of the Linux system\r\n- Know and use the main bash commands. Ability to chain multiple commands using pipes\r\n- Launch programs with arguments\r\n- Gain independence to perform command line analyses\r\n\r\nPedagogical Content\r\n- Introduction to the Linux system.\r\n- File system: directory structure, paths, home directory, file and directory management.\r\n- Principle of protections: reading file attributes, access rights, management of user groups.\r\n- Shell usage: command reminders, input/output redirection, history, completion, launching programs with arguments.\r\n- Commands relevant to bioinformatics: grep, cut, sed, sort, more, etc.\r\n- Connection (ssh) - how to start a session from Linux or Windows PowerShell", "homepage": "https://pf-bird.univ-nantes.fr/training/", "is_draft": false, "costs": [ "Priced" ], "topics": [ "http://edamontology.org/topic_0605" ], "keywords": [], "prerequisites": [], "openTo": "Everyone", "accessConditions": "", "maxParticipants": 12, "contacts": [ "https://catalogue.france-bioinformatique.fr/api/userprofile/596/?format=api" ], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [ { "id": 16, "name": "BiRD", "url": "https://catalogue.france-bioinformatique.fr/api/team/BiRD/?format=api" } ], "logo_url": "https://pf-bird.univ-nantes.fr/medias/photo/small_1612545616928-png", "updated_at": "2024-02-08T15:29:55.120700Z", "audienceTypes": [ "Professional (continued)" ], "audienceRoles": [ "Biologists", "All" ], "difficultyLevel": "Novice", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": 1, "hoursHandsOn": 6, "hoursTotal": 7, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/601/?format=api", "https://catalogue.france-bioinformatique.fr/api/event/639/?format=api" ] }, { "id": 276, "name": "Introduction to Machine Learning Using R", "shortName": "", "description": "With the rise in high-throughput sequencing technologies, the volume of omics data has grown exponentially in recent times and a major issue is to mine useful knowledge from these data which are also heterogeneous in nature. Machine learning (ML) is a discipline in which computers perform automated learning without being programmed explicitly and assist humans to make sense of large and complex data sets. The analysis of complex high-volume data is not trivial and classical tools cannot be used to explore their full potential. Machine learning can thus be very useful in mining large omics datasets to uncover new insights that can advance the field of bioinformatics.\r\n\r\nThis 2-day course will introduce participants to the machine learning taxonomy and the applications of common machine learning algorithms to omics data. The course will cover the common methods being used to analyse different omics data sets by providing a practical context through the use of basic but widely used R libraries. The course will comprise a number of hands-on exercises and challenges where the participants will acquire a first understanding of the standard ML processes, as well as the practical skills in applying them on familiar problems and publicly available real-world data sets.", "homepage": "", "is_draft": false, "costs": [], "topics": [], "keywords": [], "prerequisites": [], "openTo": "Everyone", "accessConditions": "", "maxParticipants": 30, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [ { "id": 4, "name": "IFB", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/IFB/?format=api" }, { "id": 6, "name": "Elixir-FR", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/Elixir-FR/?format=api" }, { "id": 8, "name": "Elixir", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/Elixir/?format=api" } ], "organisedByTeams": [ { "id": 29, "name": "IFB Core", "url": "https://catalogue.france-bioinformatique.fr/api/team/IFB%20Core/?format=api" } ], "logo_url": "https://www.dissco.eu/wp-content/uploads/Elixir-Europe-logo-1.png", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/415/?format=api" ] }, { "id": 347, "name": "Introduction to Microbial Comparative Genomics", "shortName": "", "description": "This course offers an introduction to microbial genomics analysis.\r\nIt includes 5 issues: assembly, genome annotation, circos visualization, pan-genome construction, pan-GWAS.", "homepage": "https://southgreenplatform.github.io/trainings//bacterialGenomics/", "is_draft": false, "costs": [ "Free" ], "topics": [], "keywords": [ "genomics", "Structural genomics", "Genome analysis" ], "prerequisites": [ "Linux - Basic Knowledge" ], "openTo": "Internal personnel", "accessConditions": "Open to South Green close collaborators", "maxParticipants": 20, "contacts": [ "https://catalogue.france-bioinformatique.fr/api/userprofile/174/?format=api", "https://catalogue.france-bioinformatique.fr/api/userprofile/771/?format=api", "https://catalogue.france-bioinformatique.fr/api/userprofile/772/?format=api", "https://catalogue.france-bioinformatique.fr/api/userprofile/773/?format=api" ], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [ { "id": 24, "name": "South Green", "url": "https://catalogue.france-bioinformatique.fr/api/team/South%20Green/?format=api" } ], "logo_url": "https://southgreenplatform.github.io/trainings//images/southgreenlong.png", "updated_at": "2023-12-04T14:54:55.468140Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "Intermediate", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": 5, "hoursHandsOn": 5, "hoursTotal": null, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/558/?format=api", "https://catalogue.france-bioinformatique.fr/api/event/561/?format=api" ] }, { "id": 49, "name": "Introduction to molecular phylogeny", "shortName": "", "description": "Training organized by CNRS Entreprises\n", "homepage": "https://cnrsformation.cnrs.fr/stage-17008-Phylogenie-moleculaire-%28Lyon%29.html", "is_draft": false, "costs": [], "topics": [], "keywords": [ "Phylogeny", "Evolution and Phylogeny", "Molecular evolution", "Tree of Life", "Phylogenomics", "Genes and genomes" ], "prerequisites": [], "openTo": "Internal personnel", "accessConditions": "Some knowledge in mathematics and statistics.\n", "maxParticipants": null, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [], "organisedByTeams": [], "logo_url": "", "updated_at": "2022-06-02T11:50:50.812642Z", "audienceTypes": [], "audienceRoles": [], "difficultyLevel": "", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": null, "hoursHandsOn": null, "hoursTotal": null, "personalised": null, "event_set": [] }, { "id": 287, "name": "Introduction to Oxford Nanopore Technology data analyses", "shortName": "Introduction to ONT data analyses", "description": "This course offers an introduction to ONT data analysis. 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