{"count":149,"next":"https://catalogue.france-bioinformatique.fr/api/trainingmaterial/?format=json&limit=20&offset=20&ordering=audienceTypes","previous":null,"results":[{"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","communities":[],"elixirPlatforms":[],"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"],"keywords":["Bacterial isolate","Annotation","Galaxy"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]},{"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 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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","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/mothur-miseq-sop-short/tutorial.html","fileName":"mothur-miseq-sop-short","topics":["http://edamontology.org/topic_3697","http://edamontology.org/topic_0637"],"keywords":["Galaxy","Metabarcoding"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life 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structure","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/metatranscriptomics/tutorial.html","fileName":"metatranscriptomics","topics":["http://edamontology.org/topic_1775","http://edamontology.org/topic_3941"],"keywords":["Galaxy"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]},{"id":133,"name":"Introduction to image analysis using Galaxy","description":"This tutorial covers the questions:\r\n- How do I use Galaxy with imaging data?\r\n- How do I convert images using Galaxy?\r\n- How do I display images in Galaxy?\r\n- How do I filter images in Galaxy?\r\n- How do I segment simple images in Galaxy?\r\n\r\nAt 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.","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/imaging/tutorials/imaging-introduction/tutorial.html","fileName":"imaging-introduction","topics":["http://edamontology.org/topic_3383","http://edamontology.org/topic_3382"],"keywords":["Galaxy"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]},{"id":145,"name":"Introduction to Transcriptomics","description":"This slidedecks presents the concepts behind 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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","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/taxonomic-profiling/tutorial.html","fileName":"taxonomic-profiling","topics":["http://edamontology.org/topic_3697","http://edamontology.org/topic_0637","http://edamontology.org/topic_3174"],"keywords":["Galaxy"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life 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annotations","communities":[],"elixirPlatforms":[],"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"],"keywords":["Bacterial isolate","Annotation","Galaxy"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]},{"id":133,"name":"Introduction to image analysis using Galaxy","description":"This tutorial covers the questions:\r\n- How do I use Galaxy with imaging data?\r\n- How do I convert images using Galaxy?\r\n- How do I display images in Galaxy?\r\n- How do I filter images in Galaxy?\r\n- How do I segment simple images in Galaxy?\r\n\r\nAt 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.","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/imaging/tutorials/imaging-introduction/tutorial.html","fileName":"imaging-introduction","topics":["http://edamontology.org/topic_3383","http://edamontology.org/topic_3382"],"keywords":["Galaxy"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]},{"id":128,"name":"Mapping with Galaxy","description":"This tutorial covers the questions:\r\n- What is mapping?\r\n- What two things are crucial for a correct mapping?\r\n- What is BAM?\r\n\r\nAt the end of the tutorial, learners would be able to:\r\n- Define what mapping is\r\n- Perform mapping of reads on a reference genome\r\n- Evaluate the mapping output","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/sequence-analysis/tutorials/mapping/tutorial.html","fileName":"mapping","topics":["http://edamontology.org/topic_0102"],"keywords":["Mapping"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]},{"id":132,"name":"Metatranscriptomics analysis using microbiome RNA-seq data","description":"This tutorial covers the questions:\r\n- How to analyze metatranscriptomics data?\r\n- What information can be extracted of metatranscriptomics data?\r\n- How to assign taxa and function to the identified sequences?\r\n\r\nAt 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","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/metatranscriptomics/tutorial.html","fileName":"metatranscriptomics","topics":["http://edamontology.org/topic_1775","http://edamontology.org/topic_3941"],"keywords":["Galaxy"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]},{"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","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/sequence-analysis/tutorials/quality-control/tutorial.html","fileName":"quality-control","topics":["http://edamontology.org/topic_0091","http://edamontology.org/topic_3168"],"keywords":["Quality Control"],"audienceTypes":["Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]},{"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 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pathways","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/transcriptomics/tutorials/ref-based/tutorial.html","fileName":"rna-seq","topics":["http://edamontology.org/topic_0102","http://edamontology.org/topic_3170","http://edamontology.org/topic_1775","http://edamontology.org/topic_3308","http://edamontology.org/topic_0203"],"keywords":["Galaxy","RNA-seq"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]},{"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","communities":[],"elixirPlatforms":[],"doi":null,"fileLocation":"https://training.galaxyproject.org/training-material/topics/microbiome/tutorials/taxonomic-profiling/tutorial.html","fileName":"taxonomic-profiling","topics":["http://edamontology.org/topic_3697","http://edamontology.org/topic_0637","http://edamontology.org/topic_3174"],"keywords":["Galaxy"],"audienceTypes":["Undergraduate","Graduate","Professional (initial)","Professional (continued)"],"audienceRoles":["Researchers","Life scientists","Biologists"],"difficultyLevel":"Novice","providedBy":[],"dateCreation":null,"dateUpdate":null,"licence":"CC-BY-4.0","maintainers":["https://catalogue.france-bioinformatique.fr/api/userprofile/677/?format=json"]}]}