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Throughout the course, we will use Python language to lead participants from the basics of computer programming to more advanced techniques such as practical machine learning techniques.\n","homepage":"https://www.pasteur.fr/fr/programmation-scientifique-python","is_draft":false,"costs":["Free"],"topics":[],"keywords":["Toolkit","Tool integration","Workflow development","Parallelization","Développements technologiques de l‘Information et de la Communication"],"prerequisites":[],"openTo":"Internal personnel","accessConditions":"","maxParticipants":null,"contacts":[],"elixirPlatforms":[],"communities":[],"sponsoredBy":[{"id":12,"name":"INCEPTION","url":"https://catalogue.france-bioinformatique.fr/api/eventsponsor/INCEPTION/?format=json"}],"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":["https://catalogue.france-bioinformatique.fr/api/event/49/?format=json","https://catalogue.france-bioinformatique.fr/api/event/393/?format=json"]},{"id":349,"name":"Reproducible Research","shortName":"","description":"The following topics and tools are covered in the course:\r\n\r\n    Data management\r\n    Project organisation\r\n    Git\r\n    Conda\r\n    Snakemake\r\n    Nextflow\r\n    R Markdown\r\n    Jupyter\r\n    Docker\r\n    Singularity\r\n\r\nAt the end of the course, students should be able to:\r\n\r\n    Use good practices for data analysis and management\r\n    Clearly organise their bioinformatic projects\r\n    Use the version control system Git to track and collaborate on code\r\n    Use the package and environment manager Conda\r\n    Use and develop workflows with Snakemake and Nextflow\r\n    Use R Markdown and Jupyter Notebooks to document and generate automated reports for their analyses\r\n    Use Docker and Singularity to distribute containerized computational environments","homepage":"https://southgreenplatform.github.io/training_reproducible_research/","is_draft":false,"costs":["Free"],"topics":[],"keywords":[],"prerequisites":["Linux - Basic Knowledge"],"openTo":"Internal personnel","accessConditions":"Open to South Green close collaborators","maxParticipants":20,"contacts":[],"elixirPlatforms":[],"communities":[],"sponsoredBy":[],"organisedByOrganisations":[],"organisedByTeams":[{"id":24,"name":"South Green","url":"https://catalogue.france-bioinformatique.fr/api/team/South%20Green/?format=json"}],"logo_url":"https://southgreenplatform.github.io/trainings//images/southgreenlong.png","updated_at":"2023-12-04T15:16:00.921744Z","audienceTypes":[],"audienceRoles":[],"difficultyLevel":"Novice","trainingMaterials":[],"learningOutcomes":"At the end of the course, students should be able to:\r\n\r\n    Use good practices for data analysis and management\r\n    Clearly organise their bioinformatic projects\r\n    Use the version control system Git to track and collaborate on code\r\n    Use the package and environment manager Conda\r\n    Use and develop workflows with Snakemake and Nextflow\r\n    Use R Markdown and Jupyter Notebooks to document and generate automated reports for their analyses\r\n    Use Docker and Singularity to distribute containerized computational environments","hoursPresentations":8,"hoursHandsOn":13,"hoursTotal":21,"personalised":null,"event_set":["https://catalogue.france-bioinformatique.fr/api/event/567/?format=json"]},{"id":16,"name":"Formations à la plate-forme Microscope","shortName":"","description":"The LABGeM team at Genoscope regularly organizes training courses dedicated to the analysis of bacterial genomes via the use of the MicroScope platform at the University of Évry.\n \nThe course \"Annotation and analysis of prokaryotic genomes using the MicroScope platform\" lasting 4.5 days is aimed at:\nacquiring theoretical and practical knowledge of genome annotation tools (structural and functional annotation, metabolic networks annotation)\nknowing how to interpret the results of functional annotation tools\nknowing how to carry out various comparative analyzes: analyzes of conserved syntenia, pan-genomes, phylogenetic and metabolic profiles\nlearning to interpret the results of metabolic network prediction tools and search for candidate genes for enzymatic activities\napplying those tools to the analysis of genomes of interest to the participants \nEach session is made up of half theory and half practical work. During the training, participants have the opportunity to work on their own data during practical work.\n \nThis training is aimed at doctoral students, engineers, researchers, experienced biological or medical laboratory technicians. It concerns both people who already have an annotation project on the MicroScope platform and wishing to deepen its use, as well as those wishing to learn microbial genomics.\n \n \nIn addition, if you are a user of the MicroScope platform and you have already followed the training \"Annotation and analysis of prokaryotic genomes using the MicroScope platform\" a few years ago we have implemented a new training , the \"MicroScope Platform - Advanced Course\" training in order to update your knowledge on the latest evolutions of the platform and to deepen some of its major functionalities.\n \nThis training, lasting 2 days, will consolidate your use of the platform but also go further:\nPresentation of the evolutions of the MicroScope platform\nPresentation of the new flagship features of the MicroScope platform\nPresentation of tools for RNA-seq analyzes\nDeepening of the functionalities allowing the exploration of the bacterial metabolism\n","homepage":"https://labgem.genoscope.cns.fr/professional-trainings/microscope-professional-t…","is_draft":false,"costs":[],"topics":[],"keywords":["Methodology","Metagenomics","Metabolic Network Modelling","Read alignment on genomes","Gene expression differential analysis","Web portals","Variant analysis","Interfaces","Systems Biology","Interoperability","Metabolomics and Fluxomics","Metabolic network analysis","Genome analysis","Structural and functional annotation of genomes","Complete genomes","Transcriptomics (RNA-seq)","Genomics (DNA-seq)","Functional and regulatory pathways comparison","Genomes comparison","Data collection curation","Comparative genomics","Data Integration","Data management and transfer","NGS Sequencing Data Analysis","Toolkit","Tool integration","Databases and information systems","Développements technologiques de l‘Information et de la Communication"],"prerequisites":[],"openTo":"Internal personnel","accessConditions":"For more information and registration : https://labgem.genoscope.cns.fr/professional-trainings/microscope-professional-trainings/.\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":[]}]}