Handles creating, reading and updating training materials.

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            "name": "workflows nf-core",
            "description": "Tutorial to launch and configure nf-core workflows on genotoul bioinfo cluster",
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            "doi": null,
            "fileLocation": "https://genotoul-bioinfo.pages.mia.inra.fr/use-nextflow-nfcore-course/",
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                "http://edamontology.org/topic_0769"
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                "Nextflow"
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            "id": 134,
            "name": "Nucleoli segmentation and feature extraction using CellProfiler",
            "description": "This tutorial covers the following questions:\r\n- How do I run an image analysis pipeline on public data using CellProfiler?\r\n- How do I analyse the DNA channel of fluorescence siRNA screens?\r\n- How do I download public image data into my history?\r\n- How do I segment and label cell nuclei?\r\n- How do I segment nucleoli (as the absence of DNA)?\r\n- How do I combine nuclei and nucleoli into one segmentation mask?\r\n- How do I extract the background of an image?\r\n- How do I relate the nucleoli to their parent nucleus?\r\n- How do I measure the image and object features?\r\n- How do I measure the image quality?\r\n\r\nAt the end of the tutorial, learners would be able to:\r\n- How to download images from a public image repository.\r\n- How to segment cell nuclei using CellProfiler in Galaxy.\r\n- How to segment cell nucleoli using CellProfiler in Galaxy.\r\n- How to extract features for images, nuclei and nucleoli.",
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            "doi": null,
            "fileLocation": "https://training.galaxyproject.org/training-material/topics/imaging/tutorials/tutorial-CP/tutorial.html",
            "fileName": "tutorial-CP",
            "topics": [
                "http://edamontology.org/topic_3383",
                "http://edamontology.org/topic_3382"
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            "keywords": [
                "Galaxy"
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            "name": "Introduction to Transcriptomics",
            "description": "This slidedecks presents the concepts behind transcriptomics",
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            "keywords": [
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            "id": 135,
            "name": "training RNASEQ Bioinfo part",
            "description": "Cette formation a pour but de vous aider à traiter les séquences courtes issues des plates-formes de séquençage Illumina. Vous y découvrirez les formats de séquences et d’alignement les biais connus et mettrez en œuvre des logiciels d'alignement épissé sur génome de référence, la recherche de nouveaux gènes, de nouveaux transcrits et la quantification de l'expression de ces gènes et transcrits.",
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            "name": "Introduction to python",
            "description": "Training slides (theory and exercises)",
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            "id": 130,
            "name": "Taxonomic Profiling and Visualization of Metagenomic Data",
            "description": "This tutorial covers the questions:\r\n- Which species (or genera, families, …) are present in my sample?\r\n- What are the different approaches and tools to get the community profile of my sample?\r\n- How can we visualize and compare community profiles?\r\n\r\nAt 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",
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            "fileLocation": "https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/taxonomic-profiling/tutorial.html",
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            "name": "training RNASeq biostat part",
            "description": "This course is part of the INRAE training session about “bioinformatics and biostatistics analysis of RNA-seq data” and of the Biostatistics platform “Initiation à LA statistique, niveau 4”. \r\nThe material provided on the present webpage is related to the biostatistics part and covers the following topics:\r\n\r\nR and RStudio\r\ndesign of experiments\r\nvariability\r\ncount data normalization\r\ndifferential analysis\r\nThe material has originally been prepared by Ignacio Gonzales, Annick Moisan and myself. The class has already been taught by these persons but also by Gaëlle Lefort and Jérôme Mariette.\r\n\r\nPre-requisites: A background in R programming is necessary for this class. Before the class, please download the course material and install R, RStudio and the packages as described below. To produce high quality figures, I will use ggplot2 for plots but will not enter into details about the ggplot2 syntax. If you are not familiar with it, you can just use these command lines or switch to base plots instead.",
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            "id": 144,
            "name": "Reference-based RNA-Seq data analysis with Galaxy",
            "description": "This tutorial covers the questions:\r\n- What are the steps to process RNA-Seq data?\r\n- How to identify differentially expressed genes across multiple experimental conditions?\r\n- What are the biological functions impacted by the differential expression of genes?\r\n\r\nAt 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",
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            "keywords": [
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            "id": 127,
            "name": "Quality Control with Galaxy",
            "description": "This tutorial covers the questions:\r\n- How to perform quality control of NGS raw data?\r\n- What are the quality parameters to check for a dataset?\r\n- How to improve the quality of a dataset?\r\n\r\nAt the end of the tutorial, learners would be able to:\r\n- Assess short reads FASTQ quality using FASTQE 🧬😎 and FastQC\r\n- Assess long reads FASTQ quality using Nanoplot and PycoQC\r\n- Perform quality correction with Cutadapt (short reads)\r\n-  Summarise quality metrics MultiQC\r\n- Process single-end and paired-end data",
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            "doi": null,
            "fileLocation": "https://training.galaxyproject.org/training-material/topics/sequence-analysis/tutorials/quality-control/tutorial.html",
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            "topics": [
                "http://edamontology.org/topic_3168",
                "http://edamontology.org/topic_0091"
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            "keywords": [
                "Quality Control"
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                "Graduate",
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            "id": 141,
            "name": "training material sed and awk training",
            "description": "training material sed and awk training (genotoul bioinfo facility)",
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            "doi": null,
            "fileLocation": "https://genoweb.toulouse.inra.fr/~klopp/SedAwk2024/Processing_large_files_with_sed_awk_2024.pdf",
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                "http://edamontology.org/topic_3316"
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            "keywords": [
                "Programming Languages & Computer Sciences"
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        },
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            "id": 1,
            "name": "SG-ONT-slides",
            "description": "Slides used for the training \"\t\r\nIntroduction to Oxford Nanopore Technology data analyses\"",
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            "doi": null,
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            "dateCreation": "2022-01-24",
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        },
        {
            "id": 131,
            "name": "16S Microbial Analysis with mothur",
            "description": "This tutorial covers the questions:\r\n- What is the effect of normal variation in the gut microbiome on host health?\r\n\r\nAt the end of the tutorial, learners would be able to:\r\n- Analyze of 16S rRNA sequencing data using the mothur toolsuite in Galaxy\r\n- Using a mock community to assess the error rate of your sequencing experiment\r\n- Visualize sample diversity using Krona and Phinch",
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            "doi": null,
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                "http://edamontology.org/topic_3697",
                "http://edamontology.org/topic_0637"
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            "keywords": [
                "Galaxy",
                "Metabarcoding"
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        },
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            "id": 15,
            "name": "From Biotea to Bioschemas: definition of profiles required to represent scholarly publications",
            "description": "\n \n\nFrom Biotea to Bioschemas: definition of profiles required to represent scholarly publications\n \n",
            "communities": [],
            "elixirPlatforms": [],
            "doi": null,
            "fileLocation": "http://ressources.france-bioinformatique.fr/sites/default/files/videos/scorms/from-biotea-to-bioschemas_28f9/scormcontent/index.html",
            "fileName": "missing.txt",
            "topics": [],
            "keywords": [
                "biohackaton 2018"
            ],
            "audienceTypes": [],
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            "dateCreation": "2019-03-21",
            "dateUpdate": null,
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        },
        {
            "id": 14,
            "name": "Galaxy training material improvement and extension",
            "description": "\n \n\nGalaxy training material improvement and extension\n \n",
            "communities": [],
            "elixirPlatforms": [],
            "doi": null,
            "fileLocation": "http://ressources.france-bioinformatique.fr/sites/default/files/videos/scorms/galaxy-training-material_6300/scormcontent/index.html",
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        },
        {
            "id": 7,
            "name": "Prototyping the new PSICQUIC 2-0",
            "description": "\n \n\nPrototyping the new PSICQUIC 2.0\n \n",
            "communities": [],
            "elixirPlatforms": [],
            "doi": null,
            "fileLocation": "http://ressources.france-bioinformatique.fr/sites/default/files/videos/scorms/prototyping_353b/scormcontent/index.html",
            "fileName": "missing.txt",
            "topics": [],
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                "biohackaton 2018"
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            "dateCreation": "2019-03-21",
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        },
        {
            "id": 13,
            "name": "Import workflows into TeSS Concept Maps",
            "description": "\n \n\nImport workflows into TeSS Concept Maps\n \n",
            "communities": [],
            "elixirPlatforms": [],
            "doi": null,
            "fileLocation": "http://ressources.france-bioinformatique.fr/sites/default/files/videos/scorms/import-workflows-into-tess_4062/scormcontent/index.html",
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        },
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            "id": 12,
            "name": "Improve Orphanet disease description knowledge by phenotypic automated recognition using scrapping toolkits",
            "description": "\n \n\nImprove Orphanet disease description knowledge by phenotypic automated recognition using scrapping toolkits\n \n",
            "communities": [],
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            "doi": null,
            "fileLocation": "http://ressources.france-bioinformatique.fr/sites/default/files/videos/scorms/improve-orphanet_8da2/scormcontent/index.html",
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        },
        {
            "id": 6,
            "name": "ProtVista (protein annotation viewer) extension using Bioschemas data",
            "description": "\n \n\nProtVista (protein annotation viewer) extension using Bioschemas data\n \n",
            "communities": [],
            "elixirPlatforms": [],
            "doi": null,
            "fileLocation": "http://ressources.france-bioinformatique.fr/sites/default/files/videos/scorms/protvista-protein_2cd8/scormcontent/index.html",
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        },
        {
            "id": 3,
            "name": "Transfer of Research Assets between FAIRDOM SEEKs",
            "description": "\n \n\nTransfer of Research Assets between FAIRDOM SEEKs\n \n",
            "communities": [],
            "elixirPlatforms": [],
            "doi": null,
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        },
        {
            "id": 11,
            "name": "Improve Shiny and RStudio integration within Galaxy using Galaxy Interactive Environment",
            "description": "\n \n\nImprove Shiny and RStudio integration within Galaxy using Galaxy Interactive Environment\n \n",
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            "doi": null,
            "fileLocation": "http://ressources.france-bioinformatique.fr/sites/default/files/videos/scorms/improve-shiny-and-rstudio_fcd3/scormcontent/index.html",
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