Training List
Handles creating, reading and updating training events.
GET /api/training/?format=api&offset=120&ordering=organisedByTeams
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Nous proposons au personnel non-bioinformaticien de les accompagner dans la prise en main des ces étapes d’analyses en utilisant la plateforme de bio-analyse Galaxy. \r\n\r\nAprès une introduction à l’analyse d’images, une session pratique sur la plateforme Galaxy couvrira comment :\r\n- extraire des métadonnées d’une image,\r\n- convertir, filtrer et segmenter une image", "homepage": "", "is_draft": false, "costs": [ "Free to academics" ], "topics": [ "http://edamontology.org/topic_3383", "http://edamontology.org/topic_3382" ], "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": 96, "name": "Mésocentre Clermont-Auvergne", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/M%C3%A9socentre%20Clermont-Auvergne/?format=api" }, { "id": 87, "name": "AuBi", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/AuBi/?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": "2024-02-08T11:25:36.663764Z", "audienceTypes": [ "Undergraduate", "Graduate", "Professional (initial)", "Professional (continued)" ], "audienceRoles": [ "Researchers", "Life scientists", "Biologists" ], "difficultyLevel": "Novice", "trainingMaterials": [ { "id": 133, "name": "Introduction to image analysis using Galaxy", "url": "https://catalogue.france-bioinformatique.fr/api/trainingmaterial/Introduction%20to%20image%20analysis%20using%20Galaxy/?format=api" } ], "learningOutcomes": "At the end of the tutorial, learners would be able to:\r\n- How to handle images in Galaxy.\r\n- How to perform basic image processing in Galaxy", "hoursPresentations": 1, "hoursHandsOn": 2, "hoursTotal": 3, "personalised": null, "event_set": [] }, { "id": 295, "name": "Introduction to the use of a computing cluster", "shortName": "", "description": "Knowledge of the concepts and best practices for using the computing resources of the mesocenter cluster Clermont Auvergne in a bioinformatics context.\r\nBecome familiar with the work environment of the computing cluster, become autonomous in the use of its resources and learn to use a scheduler. \r\nPresentation of the resources accessible on the cluster (computing nodes, storage spaces, tools).\r\nConcept of jobs, queues and parallel computing.\r\nJob management (submission, follow-up, deletion).", "homepage": "https://mesocentre.uca.fr/", "is_draft": false, "costs": [ "Free to academics" ], "topics": [ "http://edamontology.org/topic_0091", "http://edamontology.org/topic_0605" ], "keywords": [], "prerequisites": [ "Linux and knowledge of NGS formats" ], "openTo": "Internal personnel", "accessConditions": "Have an account on the Mesocentre UCA computing cluster (make a request if necessary on the site https://hub.mesocentre.uca.fr)\r\nAlternation of theoretical courses and practical work.\r\nCOME WITH A LAPTOP with an operational Eduroam connection.\r\nThe training is in French.", "maxParticipants": 10, "contacts": [], "elixirPlatforms": [], "communities": [], "sponsoredBy": [], "organisedByOrganisations": [ { "id": 45, "name": "UMR 454 MEDIS INRA-Université Clermont Auvergne", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/UMR%20454%20MEDIS%20INRA-Universit%C3%A9%20Clermont%20Auvergne/?format=api" } ], "organisedByTeams": [ { "id": 31, "name": "AuBi", "url": "https://catalogue.france-bioinformatique.fr/api/team/AuBi/?format=api" } ], "logo_url": null, "updated_at": "2023-01-24T10:21:58.347905Z", "audienceTypes": [ "Graduate" ], "audienceRoles": [ "Researchers", "Computer scientists" ], "difficultyLevel": "Novice", "trainingMaterials": [], "learningOutcomes": "", "hoursPresentations": 3, "hoursHandsOn": 4, "hoursTotal": 8, "personalised": false, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/487/?format=api", "https://catalogue.france-bioinformatique.fr/api/event/616/?format=api", "https://catalogue.france-bioinformatique.fr/api/event/461/?format=api", "https://catalogue.france-bioinformatique.fr/api/event/751/?format=api", "https://catalogue.france-bioinformatique.fr/api/event/708/?format=api" ] }, { "id": 382, "name": "Introduction à l'analyse de données transcriptomiques avec Galaxy", "shortName": "", "description": "L’objectif est de se familiariser avec les étapes d’analyses des données transcriptomiques ou RNA-seq avec référence pour extraire les gènes et fonctions différentiellement exprimés. Nous proposons au personnel non-bioinformaticien de les accompagner dans la prise en main de ces étapes d’analyses en utilisant la plateforme de bio-analyse Galaxy. \r\n\r\n\r\nAprès une introduction à la transcriptomique, une session pratique sur la plateforme Galaxy couvrira comment :\r\n- évaluer la qualité des données transcriptomiques,\r\n- aligner des données transcriptomiques sur un génome de référence,\r\n- estimer le nombre de séquences par gènes,\r\n- construire et faire une analyse d’expression différentielle des gènes\r\n- faire une analyse de l’enrichissement fonctionnel des gènes différentiellement exprimés", "homepage": "", "is_draft": false, "costs": [ "Free to academics" ], "topics": [ "http://edamontology.org/topic_3308", "http://edamontology.org/topic_1775", "http://edamontology.org/topic_0203", "http://edamontology.org/topic_3170" ], "keywords": [ "Galaxy", "RNA-seq", "Transcriptomics (RNA-seq)" ], "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/677/?format=api", "https://catalogue.france-bioinformatique.fr/api/userprofile/807/?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": 96, "name": "Mésocentre Clermont-Auvergne", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/M%C3%A9socentre%20Clermont-Auvergne/?format=api" }, { "id": 87, "name": "AuBi", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/AuBi/?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": "2024-06-06T08:06:54.982689Z", "audienceTypes": [ "Undergraduate", "Graduate", "Professional (initial)", "Professional (continued)" ], "audienceRoles": [ "Researchers", "Life scientists", "Biologists" ], "difficultyLevel": "Novice", "trainingMaterials": [ { "id": 144, "name": "Reference-based RNA-Seq data analysis with Galaxy", "url": "https://catalogue.france-bioinformatique.fr/api/trainingmaterial/Reference-based%20RNA-Seq%20data%20analysis%20with%20Galaxy/?format=api" }, { "id": 145, "name": "Introduction to Transcriptomics", "url": "https://catalogue.france-bioinformatique.fr/api/trainingmaterial/Introduction%20to%20Transcriptomics/?format=api" } ], "learningOutcomes": "At the end of the tutorial, learners would be able to:\r\n- Check a sequence quality report generated by FastQC for RNA-Seq data\r\n- Explain the principle and specificity of mapping of RNA-Seq data to an eukaryotic reference genome\r\n- Select and run a state of the art mapping tool for RNA-Seq data\r\n- Evaluate the quality of mapping results\r\n- Describe the process to estimate the library strandness\r\n- Estimate the number of reads per genes\r\n- Explain the count normalization to perform before sample comparison\r\n- Construct and run a differential gene expression analysis\r\n- Analyze the DESeq2 output to identify, annotate and visualize differentially expressed genes\r\n- Perform a gene ontology enrichment analysis\r\n- Perform and visualize an enrichment analysis for KEGG pathways", "hoursPresentations": 1, "hoursHandsOn": 7, "hoursTotal": 8, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/637/?format=api" ] }, { "id": 371, "name": "Introduction à l'analyse de données métatranscriptomiques avec Galaxy", "shortName": "", "description": "L’objectif de cette formation est de se familiariser avec les étapes et les outils d’analyse de données métatranscriptomiques dans le but de comprendre les fonctions d’une communauté microbienne. 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 métatranscriptomique, une session pratique sur la plateforme Galaxy couvrira comment :\r\n- assigner des taxons à des données de métatranscriptomiques,\r\n- extraire des informations fonctionnelles au sein de données de métatranscriptomiques,\r\n- combiner informations taxonomiques et fonctionnelles pour faciliter la compréhension des fonctions d’une communauté microbienne", "homepage": "", "is_draft": false, "costs": [ "Free to academics" ], "topics": [ "http://edamontology.org/topic_3697", "http://edamontology.org/topic_0085", "http://edamontology.org/topic_3941", "http://edamontology.org/topic_1775" ], "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": 96, "name": "Mésocentre Clermont-Auvergne", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/M%C3%A9socentre%20Clermont-Auvergne/?format=api" }, { "id": 87, "name": "AuBi", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/AuBi/?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": "2024-02-08T11:22:23.706233Z", "audienceTypes": [ "Undergraduate", "Graduate", "Professional (initial)", "Professional (continued)" ], "audienceRoles": [ "Researchers", "Life scientists", "Biologists" ], "difficultyLevel": "Novice", "trainingMaterials": [ { "id": 132, "name": "Metatranscriptomics analysis using microbiome RNA-seq data", "url": "https://catalogue.france-bioinformatique.fr/api/trainingmaterial/Metatranscriptomics%20analysis%20using%20microbiome%20RNA-seq%20data/?format=api" } ], "learningOutcomes": "At the end of the tutorial, learners would be able to:\r\n- Choose the best approach to analyze metatranscriptomics data\r\n- Understand the functional microbiome characterization using metatranscriptomic results\r\n- Understand where metatranscriptomics fits in ‘multi-omic’ analysis of microbiomes\r\n- Visualise a community structure", "hoursPresentations": 1, "hoursHandsOn": 2, "hoursTotal": 3, "personalised": null, "event_set": [] }, { "id": 368, "name": "Introduction à l'annotation de génomes bactériens avec Galaxy", "shortName": "", "description": "L’objectif est cette formation de se familiariser avec les étapes et les outils pour annoter des génomes bactériens. Nous proposons au personnel non-bioinformaticien de les accompagner dans la prise en main de l’annotation de génomes bactériens en utilisant la plateforme de bio-analyse Galaxy. \r\n\r\nAprès une introduction à l’annotation de génomes bactériens, une session pratique sur la plateforme Galaxy couvrira comment :\r\n- faire tourner une série d’outils pour annoter un génome bactérien avec différents éléments génomiques,\r\n- évaluer l’annotation\r\n- visualiser un génome bactérien et ses annotations", "homepage": "", "is_draft": false, "costs": [ "Free to academics" ], "topics": [ "http://edamontology.org/topic_0622", "http://edamontology.org/topic_3301", "http://edamontology.org/topic_0219", "http://edamontology.org/topic_0097" ], "keywords": [ "Bacterial isolate", "Galaxy", "Structural and functional annotation of genomes" ], "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": 96, "name": "Mésocentre Clermont-Auvergne", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/M%C3%A9socentre%20Clermont-Auvergne/?format=api" }, { "id": 87, "name": "AuBi", "url": "https://catalogue.france-bioinformatique.fr/api/organisation/AuBi/?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": "2024-02-08T11:22:51.682232Z", "audienceTypes": [ "Undergraduate", "Graduate", "Professional (initial)", "Professional (continued)" ], "audienceRoles": [ "Researchers", "Life scientists", "Biologists" ], "difficultyLevel": "Novice", "trainingMaterials": [ { "id": 129, "name": "Bacterial Genome Annotation", "url": "https://catalogue.france-bioinformatique.fr/api/trainingmaterial/Bacterial%20Genome%20Annotation/?format=api" } ], "learningOutcomes": "At the end of the tutorial, learners would be able to:\r\n- Run a series of tools to annotate a draft bacterial genome for different types of genomic components\r\n- Evaluate the annotation\r\n- Process the outputs to format them for visualization needs\r\n- Visualize a draft bacterial genome and its annotations", "hoursPresentations": 1, "hoursHandsOn": 2, "hoursTotal": 3, "personalised": null, "event_set": [ "https://catalogue.france-bioinformatique.fr/api/event/598/?format=api" ] }, { "id": 377, "name": "RNASEQ ALIGNMENT, QUANTIFICATION AND TRANSCRIPT DISCOVERY WITH STATISTICS", "shortName": "RNASeq bioinfo / biostat", "description": "The Toulouse Genotoul bioinformatics platform, in collaboration with the Genotoul Biostatistics platform, and the MIAT unit, organize a 3,5 days long training course for bio-informaticians and biologists aiming at learning sequence analysis. It focuses on (protein coding) gene expression analysis using reads produced by ‘RNA-Seq’. This training session is designed to introduce sequences from ‘NGS’ (Next Generation Sequencing), particularly Illumina platforms (HiSeq). You will discover the standards file formats, learn about the usual biases of this type of data and run different kinds of analyses, such as spliced alignment on a reference genome, novel gene and transcript discovery, expression quantification of coding genes and transcripts. 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La formation abordera les fondamentaux et les fonctionnalités avancées des deux langages Snakemake et Nextflow. Ces outils sont en effet devenus indispensables pour assurer la reproductibilité et l’efficacité des analyses bioinformatiques. La formation sera structurée en deux séquences :\r\n- une journée commune qui abordera les grands principes des gestionnaires de workflow, en particulier dans le domaine de la bioinformatique et en lien avec les infrastructures de calcul de type cluster et cloud proposés au sein de l’IFB \r\n- une journée de session pratique avec 1 atelier snakemake et 1 atelier nextflow en parallèle au choix des participants. 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