Handles creating, reading and updating training materials.

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            "name": "Snakemake tutorial: Gene regulation",
            "description": "Workflow 1: Rules and targets\nWorkflow 2: Introducing wildcards\nWorkflow 3: Keywords\nWorkflow 4: Combining rules\nWorkflow 5: Configuration file\nWorkflow 6: Separated files\n",
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            "fileLocation": "http://gene-regulation.readthedocs.io/en/latest/snakemake.html",
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                "Gene regulation",
                "Snakemake"
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            "dateCreation": "2016-04-13",
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            "id": 33,
            "name": "Docker for Beginners",
            "description": "What is Docker?\nBuilding an image\nBioShadock & Orchestration\n",
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            "doi": null,
            "fileLocation": "https://vdda.github.io/revealJS_test/docker_intro2.html",
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            "keywords": [
                "Docker"
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            "dateCreation": "2017-01-19",
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            "id": 106,
            "name": "Genomic copy number Tutorial",
            "description": "We will analyze the copy number variations of a human tumor (parotid gland carcinoma), limited to the chr17, from a WES (whole-exome sequencing) experiment. All genomic coordinates correspond to the 2009 build of the reference human genome (hg19 / GRC37).\n",
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            "fileLocation": "http://ecole-bioinfo-aviesan.sb-roscoff.fr/sites/ecole-bioinfo-aviesan.sb-roscoff.fr/files/files/CNV_TD_guidelines_BJ.pdf",
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                "Structural genomics",
                "Copy number"
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            "name": "Galaxy Visualisation - Tutorial",
            "description": "Visualizations may be very helpful in understanding data better. There is a whole range of visualizations, from rather simple scatter and barplots up to projections of high dimensional data or even entire genomes. Many of these visualizations often require a lot of tweaking and changes in settings like zooming in and assigning colors, etc. Therefore, visualizations are ideally interactive, and changing settings is often an initial step in exploring data. For this reason it may be inconvenient to make use of static galaxy tools because it lacks these interactive features. For these situations Galaxy offers the option to create visualizations plugins, file format specific javascripts that integrate with the history menu, without making redundant copies of data.\nIn this tutorial we shall go through how this system works and create a simple visualization plugin. The tool will create a visualization of the number of aligned reads per chromosome of a BAM file, and we will discuss possible optimizations and advantages and disadvantages of the proposed implementation.\n",
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            "dateCreation": "2017-01-18",
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            "id": 66,
            "name": "Galaxy III: Visualization",
            "description": "Visualization of Next Generation Sequencing Data using the Integrative Genomics Viewer (IGV)\n",
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            "doi": null,
            "fileLocation": "https://www.france-bioinformatique.fr/sites/default/files/G06_TP_IGV_2016.pdf",
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                "genomics"
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            "dateCreation": "2017-01-09",
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            "id": 119,
            "name": "Visualization of NGS data with IGV",
            "description": "Visualisation of next-gen sequencing data with Integrative Genomics Viewer\n",
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            "doi": null,
            "fileLocation": "http://ecole-bioinfo-aviesan.sb-roscoff.fr/sites/ecole-bioinfo-aviesan.sb-roscoff.fr/files/files/IGV-Roscoff-Septembre2015.pdf",
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            "id": 2,
            "name": "Using blockchain in biomedical provenance, the identifiers use case",
            "description": "\n \n\nUsing blockchain in biomedical provenance, the identifiers use case\n \n",
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            "doi": null,
            "fileLocation": "http://ressources.france-bioinformatique.fr/sites/default/files/videos/scorms/using-blockchain_039d/scormcontent/index.html",
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            "topics": [],
            "keywords": [
                "biohackaton 2018"
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            "dateCreation": "2019-03-21",
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            "id": 63,
            "name": "Variant Filtering",
            "description": "Use cases:\nExtact a subset of variants\nCombine variants from several analysis\n\nCompare obtained variants from several data types\n\n\nIdentify new variants compare to a reference list\n\n\nApply specific filters for Chip Design\n\n",
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            "doi": null,
            "fileLocation": "http://ecole-bioinfo-aviesan.sb-roscoff.fr/sites/ecole-bioinfo-aviesan.sb-roscoff.fr/files/files/FiltrageVariantNLapaluRoscoff2015.pdf",
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                "genomics",
                "Variant calling",
                "NGS"
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            "id": 90,
            "name": "A Simple Phylogenetic Tree Construction (part 2)",
            "description": "Understand the method used in identifying an unknown sequence.\nUnderstand the limitations of this method\nGet to grips with various software (CLUSTALw, SeaView, Phylo_win and Njplot)\n",
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            "doi": null,
            "fileLocation": "http://www.prabi.fr/spip.php?article60",
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            "keywords": [
                "Phylogenetics"
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        {
            "id": 91,
            "name": "A Simple Phylogenetic Tree Construction (part 1)",
            "description": "Understand the method behind constructing a phylogenetic tree from the search for sequences to the analysis of the tree.\nGet to grips with various bio-informatic software (BLAST, CLUSTALw, SeaView and Phylo_win).\n",
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            "elixirPlatforms": [],
            "doi": null,
            "fileLocation": "http://www.prabi.fr/spip.php?article59",
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            "dateCreation": null,
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            "id": 70,
            "name": "Revealing and analyzing microbial networks: from topology to functional behaviors",
            "description": "Understanding the interactions between microbial communities and their environment well enough to be able to predict diversity on the basis of physicochemical parameters is a fundamental pursuit of microbial ecology that still eludes us. However, modeling microbial communities is a complicated task, because (i) communities are complex, (ii) most are described qualitatively, and (iii) quantitative understanding of the way communities interacts with their surroundings remains incomplete. Within this seminar, we will illustrate two complementary approaches that aim to overcome these points in different manners.\n",
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            "doi": null,
            "fileLocation": "http://www.france-bioinformatique.fr/sites/default/files/videos/scorms/metagenomics16/session_8/Revealing_and_analyzing%20microbial_networks_from_topology_to_functional_behaviors/scormcontent/index.html",
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            "topics": [],
            "keywords": [
                "Metagenomics"
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            "audienceTypes": [],
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            "dateCreation": "2016-12-16",
            "dateUpdate": null,
            "licence": "CC BY-NC-ND",
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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,
            "fileLocation": "http://ressources.france-bioinformatique.fr/sites/default/files/videos/scorms/transfer-of-research_9014/scormcontent/index.html",
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            "dateCreation": "2019-03-21",
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        },
        {
            "id": 108,
            "name": "RNA-Seq: isoform detection and quantification",
            "description": "transcriptome from new condition\ntissue-speci c transcriptome\ndifferent development stages\ntranscriptome from non model organism\ncancer cell\nRNA maturation mutant\n \nHow to manage RNA-Seq data with genes subjected to di erential\nsplicing?\nIs it possible to discover new isoforms?\nIs it possible to quantify abundance of each isoform\n",
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            "doi": null,
            "fileLocation": "http://ecole-bioinfo-aviesan.sb-roscoff.fr/sites/ecole-bioinfo-aviesan.sb-roscoff.fr/files/files/toffano-TP_RNASeq_Isoform.pdf",
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            "topics": [],
            "keywords": [
                "Isoforms",
                "RNA-seq",
                "Transcriptomics"
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            "dateCreation": null,
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        {
            "id": 62,
            "name": "RNA-seq: Differential gene expression analysis",
            "description": "Transcriptome analysis provides information about the identity and quantity of all RNA molecules\n",
            "communities": [],
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            "doi": null,
            "fileLocation": "http://www.france-bioinformatique.fr/sites/default/files/R01_EBA206_RNAseq_ref.pdf",
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            "topics": [],
            "keywords": [
                "genomics",
                "RNA-seq"
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            "dateCreation": "2016-11-22",
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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/SedAwk2021/Processing_large_files_with_sed_awk_2021_v1.0.pdf",
            "fileName": "Processing_large_files_with_sed_awk_2021_v1.0.pdf",
            "topics": [],
            "keywords": [],
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            "difficultyLevel": "Intermediate",
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        {
            "id": 138,
            "name": "Linux TP",
            "description": "TP for linux training (genotoul bioinfo facility)",
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            "doi": null,
            "fileLocation": "https://genotoul-bioinfo.pages.mia.inra.fr/linux-cluster/",
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            "audienceRoles": [],
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        {
            "id": 140,
            "name": "TP Cluster",
            "description": "TP for cluster training (bioinfo genotoul facility)",
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            "doi": null,
            "fileLocation": "https://genotoul-bioinfo.pages.mia.inra.fr/linux-cluster/cluster/tp2/",
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            "keywords": [],
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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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            "doi": null,
            "fileLocation": "https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/taxonomic-profiling/tutorial.html",
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                "http://edamontology.org/topic_3174",
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            "keywords": [
                "Galaxy"
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                "Professional (continued)"
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            "audienceRoles": [
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                "Life scientists",
                "Biologists"
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            "difficultyLevel": "Novice",
            "providedBy": [],
            "dateCreation": null,
            "dateUpdate": null,
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            "id": 129,
            "name": "Bacterial Genome Annotation",
            "description": "This tutorial covers the questions:\r\n- Which genes are on a draft bacterial genome?\r\n- Which other genomic components can be found on a draft bacterial genome?\r\n\r\nAt 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",
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            "doi": null,
            "fileLocation": "https://training.galaxyproject.org/training-material/topics/genome-annotation/tutorials/bacterial-genome-annotation/tutorial.html",
            "fileName": "bacterial-genome-annotation",
            "topics": [
                "http://edamontology.org/topic_3301",
                "http://edamontology.org/topic_0219"
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            "keywords": [
                "Bacterial isolate",
                "Annotation",
                "Galaxy"
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                "Graduate",
                "Professional (initial)",
                "Professional (continued)"
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            "audienceRoles": [
                "Researchers",
                "Life scientists",
                "Biologists"
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            "difficultyLevel": "Novice",
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            "dateCreation": null,
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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,
            "fileLocation": "https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/mothur-miseq-sop-short/tutorial.html",
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                "http://edamontology.org/topic_0637"
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            "keywords": [
                "Galaxy",
                "Metabarcoding"
            ],
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                "Graduate",
                "Professional (initial)",
                "Professional (continued)"
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                "Life scientists",
                "Biologists"
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            "difficultyLevel": "Novice",
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