Handles creating, reading and updating training materials.

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            "name": "RNA-Seq: Differential Expression Analysis",
            "description": "\n \n\nBe careful about experimental design : avoid putting all the\nreplicates in the same lane, using the same barcode for the\nreplicates, putting different number of samples in lanes etc...\nNon- uniformity of the per base read distribution (Illumina Random\nHexamer Priming bias visible on the 13 first bases)\nBias hierarchy : biological condition >> concentration > run/flowcell> lane\nAt equivalent expression level, a long gene will have more reads than a short one.\nNon random coverage along the transcript.\nMultiple hit for some reads alignments.\n \n",
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            "doi": null,
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            "id": 57,
            "name": "DNA - seq Bioinformatics Analysis",
            "description": "Detection of Copy Number Variations\n \n",
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            "id": 31,
            "name": "Galaxy Docker Training Tutorial",
            "description": "Galaxy docker integration\nEnable Galaxy to use BioContainers (Docker)\nGalaxy with Docker swarm\n",
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            "doi": null,
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            "id": 34,
            "name": "Users, Groups, and Quotas in Galaxy",
            "description": "How to handle Users, Groups, and Quotas in Galaxy\n",
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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",
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            "doi": null,
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            "id": 10,
            "name": "JSON schema validation with ontologies",
            "description": "\n \n\nJSON schema validation with ontologies\n \n",
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            "id": 18,
            "name": "Development of BioJS components",
            "description": "\n \n\nDevelopment of BioJS components\n \n",
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            "name": "Cluster Slides",
            "description": "Slides for Cluster training (bioinfo genotoul facility)",
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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,
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                "http://edamontology.org/topic_0769"
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            "id": 98,
            "name": "A Quick and focused overview of R data types and ggplot2 syntax",
            "description": "R and RStudio overview.\n",
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            "doi": null,
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            "dateCreation": "2016-04-01",
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            "id": 64,
            "name": "Variants: alignment and pre-treatment; GATK",
            "description": "DNA-seq Bioinformatics Analysis: from raw sequences to processed alignments\n",
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            "doi": null,
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            "dateCreation": "2016-11-22",
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            "id": 145,
            "name": "Introduction to Transcriptomics",
            "description": "This slidedecks presents the concepts behind transcriptomics",
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            "doi": null,
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                "http://edamontology.org/topic_0203",
                "http://edamontology.org/topic_3170",
                "http://edamontology.org/topic_3308"
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                "RNA-seq",
                "Transcriptomics (RNA-seq)"
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        {
            "id": 104,
            "name": "Exploring microbiomes with the MicroScope Platform",
            "description": "This module is separated in different courses:\nMicroScope: General overview, Keyword search and gene cart functionalities\n\n\n\n\n\n\n\n\n\n\n\n\nFunctional annotation of microbial genomes\n\n\n\n\n\n\n\n\nFunctional annotation of microbial genomes: Prediction of enzymatic functions\n\n\n\n\n\n\n\n\nRelational annotation of bacterial genomes: synteny\n\n\n\n\n\n\n\n\nAutomatic functional assignation and expert annotation of genes\n\n\n\n\n\n\n\n\nRelational annotation of bacterial genomes: phylogenetic profiles\n\n\n\n\n\n\n\n\nRelational annotation of bacterial genomes: pan-genome analysis\n\n\n\n\n\n\n\n\nRelational annotation of bacterial genomes: metabolic pathways\n\n\n\n\nSyntactic re-annotation of public microbial genomes\n\n\n\n\nSyntactic annotation of microbial genomes\n\n\n\n\n \n",
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            "doi": null,
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            "keywords": [
                "genomics",
                "Annotation",
                "Transcriptomics",
                "Microbial evolution",
                "Metabolomics"
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            "dateCreation": "2016-03-01",
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        {
            "id": 71,
            "name": "Holistic metagenomics in marine communities",
            "description": "Complex microscopic communities are composed of species belonging to all life realms, from single-cell prokaryotes to multicellular eukaryotes of small size. Each component of a community needs to be studied for a full understanding of the functions performed by the whole assemblage, however methods to investigate microbiomes are generally restricted to a single kingdom. Using examples from the Tara Oceans project, we will show how size fractionation and use of varied metabarcoding, metagenomics and metatranscriptomics approaches can help studying the marine plankton community as a whole, in a wide geographic space.\n",
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            "doi": null,
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            "dateCreation": "2016-12-16",
            "dateUpdate": null,
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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",
            "communities": [],
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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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            "dateCreation": "2019-03-21",
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        {
            "id": 72,
            "name": "Hidden in the permafrost",
            "description": "The last decade witnessed the discovery of four families of giant viruses infecting Acanthamoeba. They have genome encoding from 500 to 2000 genes, a large fraction of which encoding proteins of unknown origin. These unique proteins meant to recognize and manipulate the same building blocks as cells raise the question on their origin as well as the role viruses played in the cellular word evolution. The Mimiviridae and the Pandoraviridae are increasingly populated by members from very diverse habitats and are ubiquitous on the planet. After prospecting the space, we went back in the past and isolated two other giant virus families from a 30,000 years old permafrost sample, Pithovirus and Mollivirus sibericum. A metagenomics study of the sample was performed to inventory its biodiversity and assess to what extend the host and the viruses were dominant. I will describe the two sequencing approaches which have been used and compare the results.\n1: Raoult D, Audic S, Robert C, Abergel C, Renesto P, Ogata H, La Scola B, Suzan M, Claverie JM. The 1.2-megabase genome sequence of Mimivirus. Science. 2004 Nov 19;306(5700):1344-50.\n2: Philippe N, Legendre M, Doutre G, Couté Y, Poirot O, Lescot M, Arslan D, Seltzer V, Bertaux L, Bruley C, Garin J, Claverie JM, Abergel C. Pandoraviruses: amoeba viruses with genomes up to 2.5 Mb reaching that of parasitic eukaryotes. Science. 2013 Jul 19;341(6143):281-6. \n3: Legendre M, Bartoli J, Shmakova L, Jeudy S, Labadie K, Adrait A, Lescot M, Poirot O, Bertaux L, Bruley C, Couté Y, Rivkina E, Abergel C, Claverie JM. Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology. Proc Natl Acad Sci U S A. 2014 Mar 18;111(11):4274-9.\n4: Legendre M, Lartigue A, Bertaux L, Jeudy S, Bartoli J, Lescot M, Alempic JM, Ramus C, Bruley C, Labadie K, Shmakova L, Rivkina E, Couté Y, Abergel C, Claverie JM. In-depth study of Mollivirus sibericum, a new 30,000-y-old giant virus infecting Acanthamoeba. Proc Natl Acad Sci U S A. 2015 Sep 22;112(38):E5327-35.\n",
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            "doi": null,
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        },
        {
            "id": 47,
            "name": "ToolShed upload and tool-iuc PR",
            "description": "Questions\nWhat is a Tool Shed?\nHow to install tools and workflows from a Tool Shed into a Galaxy instance?\nWhat are the Tool Shed repository types?\nHow to publish with Planemo?\nObjectives\nDiscover what is a Tool Shed\nBe able to install tools and workflows from a Tool Shed into a Galaxy instance\nBe able to publish tools with Planemo\n",
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            "doi": null,
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            "dateCreation": "2017-01-17",
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            "id": 46,
            "name": "BioBlend API",
            "description": "BioBlend module, a python library to use Galaxy API\n",
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            "doi": null,
            "fileLocation": "http://galaxyproject.github.io/training-material/Dev-Corner/slides/bioblend_api.html",
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            "dateCreation": "2017-01-18",
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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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            "doi": null,
            "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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