Register training material
44 materials found

Authors: Jared Simpson  or yvanlebras  or bebatut 


Transcriptomics - CLIP-Seq data analysis from pre-processing to motif detection

Training material for all kinds of transcriptomics analysis. Questions of the tutorial: - How is raw CLIP-Seq data processed and analysed? - How do I find binding motifs and targets for a protein (e.g., RBFOX2)? Objectives of the tutorial: - Remove Adapters, Barcodes and Unique Molecular...

Resource type: Tutorial

Transcriptomics - CLIP-Seq data analysis from pre-processing to motif detection https://tess.elixir-europe.org/materials/transcriptomics-clip-seq-data-analysis-from-pre-processing-to-motif-detection Training material for all kinds of transcriptomics analysis. Questions of the tutorial: - How is raw CLIP-Seq data processed and analysed? - How do I find binding motifs and targets for a protein (e.g., RBFOX2)? Objectives of the tutorial: - Remove Adapters, Barcodes and Unique Molecular Identifiers (UMIs) from the reads - Align trimmed reads with STAR - De-duplicate the read library - Inspect the read mapping and de-duplication quality - Perform peak calling with PEAKachu - Analyse the peaks and find potential binding motifs and targets - Check the quality of the peak calling
Informatics on High-Throughput Sequencing Data 2018 Module 6-De Novo Assmebly

Course covers the bioinformatics tools available for managing and interpreting high-throughput sequencing data, where the focus is on Illumina reads although information is applicable to all sequencer reads.

Informatics on High-Throughput Sequencing Data 2018 Module 6-De Novo Assmebly https://tess.elixir-europe.org/materials/informatics-on-high-throughput-sequencing-data-2018-module-6-de-novo-assmebly Course covers the bioinformatics tools available for managing and interpreting high-throughput sequencing data, where the focus is on Illumina reads although information is applicable to all sequencer reads. Researchers Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists Graduate students
Informatics on High-Throughput Sequencing Data 2018 Module 1-Introduction to High-Throughput Sequencing

Course covers the bioinformatics tools available for managing and interpreting high-throughput sequencing data, where the focus is on Illumina reads although information is applicable to all sequencer reads.

Informatics on High-Throughput Sequencing Data 2018 Module 1-Introduction to High-Throughput Sequencing https://tess.elixir-europe.org/materials/informatics-on-high-throughput-sequencing-data-2018-module-1-introduction-to-high-throughput-sequencing Course covers the bioinformatics tools available for managing and interpreting high-throughput sequencing data, where the focus is on Illumina reads although information is applicable to all sequencer reads. Researchers Graduate students Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists
Bioinformatics for Cancer Genomics 2018 Module 5-Genome Assembly

Course covers the key bioinformatics concepts and tools required to analyze cancer genomic data sets and access and work with data sets in the cloud.

Bioinformatics for Cancer Genomics 2018 Module 5-Genome Assembly https://tess.elixir-europe.org/materials/bioinformatics-for-cancer-genomics-2018-module-5-genome-assembly Course covers the key bioinformatics concepts and tools required to analyze cancer genomic data sets and access and work with data sets in the cloud. Researchers Graduate students Biologists, Genomicists, Computer Scientists Post-Doctoral Fellows
Bioinformatics for Cancer Genomics 2018 Module 4-Genome Alignment

Course covers the key bioinformatics concepts and tools required to analyze cancer genomic data sets and access and work with data sets in the cloud.

Bioinformatics for Cancer Genomics 2018 Module 4-Genome Alignment https://tess.elixir-europe.org/materials/bioinformatics-for-cancer-genomics-2018-module-4-genome-alignment Course covers the key bioinformatics concepts and tools required to analyze cancer genomic data sets and access and work with data sets in the cloud. Researchers Graduate students Biologists, Genomicists, Computer Scientists Post-Doctoral Fellows
Bioinformatics for Cancer Genomics 2017 Module 3-Genome Alignment and Assembly

Course covers the bioinformatics tools required to analyze genomic data sets.

Bioinformatics for Cancer Genomics 2017 Module 3-Genome Alignment and Assembly https://tess.elixir-europe.org/materials/bioinformatics-for-cancer-genomics-2017-module-3-genome-alignment-and-assembly Course covers the bioinformatics tools required to analyze genomic data sets. Researchers Graduate students Biologists, Genomicists, Computer Scientists Post-Doctoral Fellows
Informatics on High-Throughput Sequencing Data 2017 Module 6-De Novo Assembly

Course covers the bioinformatics tools available for managing and interpreting high-throughput sequencing data with a focus on Illumina reads.

Informatics on High-Throughput Sequencing Data 2017 Module 6-De Novo Assembly https://tess.elixir-europe.org/materials/informatics-on-high-throughput-sequencing-data-2017-module-6-de-novo-assembly Course covers the bioinformatics tools available for managing and interpreting high-throughput sequencing data with a focus on Illumina reads. Researchers Graduate Students Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists
Informatics on High-Throughput Sequencing Data 2017 Module 1-Introduction to High-Throughput Sequencing

Course covers the bioinformatics tools available for managing and interpreting high-throughput sequencing data with a focus on Illumina reads.

Informatics on High-Throughput Sequencing Data 2017 Module 1-Introduction to High-Throughput Sequencing https://tess.elixir-europe.org/materials/informatics-on-high-throughput-sequencing-data-module-1-introduction-to-high-throughput-sequencing Course covers the bioinformatics tools available for managing and interpreting high-throughput sequencing data with a focus on Illumina reads. Researchers Graduate students Biologists, Genomicists, Computer Scientists Post-Doctoral Fellows
High-Throughput Biology 2017 Module 6-De Novo Assembly

Course covers the key bioinformatics concepts and tools required to analyze DNA- and RNA- sequence reads using a reference genome.

High-Throughput Biology 2017 Module 6-De Novo Assembly https://tess.elixir-europe.org/materials/high-throughput-biology-2017-module-6-de-novo-assembly Course covers the key bioinformatics concepts and tools required to analyze DNA- and RNA- sequence reads using a reference genome. Researchers Graduate students Biologists, Genomicists, Computer Scientists Post-Doctoral Fellows
High-Throughput Biology 2017 Module 1-Introduction to High-Throughput Sequencing

Course covers the key bioinformatics concepts and tools required to analyze DNA- and RNA- sequence reads using a reference genome.

High-Throughput Biology 2017 Module 1-Introduction to High-Throughput Sequencing https://tess.elixir-europe.org/materials/high-throughput-biology-2017-module-1-introduction-to-high-throughput-sequencing Course covers the key bioinformatics concepts and tools required to analyze DNA- and RNA- sequence reads using a reference genome. Graduate students Post-Doctoral Fellows Researchers Biologists, Genomicists, Computer Scientists
Contributing to the Galaxy Training Material - Creating a new tutorial

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Creating a new tutorial https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-creating-a-new-tutorial Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How to integrate a new tutorial? - How to make a tutorial robust and reproducible? Objectives of the tutorial: - Create a tutorial from scratch - Link a tutorial to a topic - Create hands-on - Add technical support for a tutorial
Contributing to the Galaxy Training Material - Creating a new tutorial - Slides

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Slides

Contributing to the Galaxy Training Material - Creating a new tutorial - Slides https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-creating-a-new-tutorial-slides Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How to format slides? - How do we add presenter notes? - How to use the features of the slide show tool? - What sort of content should be included in slides? Objectives of the tutorial: - Create a new set of slides - Add presenter comments
Contributing to the Galaxy Training Material - Contributing with GitHub via its interface

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Contributing with GitHub via its interface https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-contributing-with-github-via-its-interface Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How can I contribute to an open-source project with GitHub and its interface Objectives of the tutorial: - Edit a file via GitHub interface - Create a pull request - Update a pull request
Contributing to the Galaxy Training Material - Set up a Galaxy for Training

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Set up a Galaxy for Training https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-set-up-a-galaxy-for-training Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How do I prepare my Galaxy instance to support a training module? - How can I generate a Docker Galaxy instance for my topic? Objectives of the tutorial: - Use ephemeris to install the training requirements to a Galaxy instance - Create a docker image for a training topic
Contributing to the Galaxy Training Material - Good practices to run a workshop

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Slides

Contributing to the Galaxy Training Material - Good practices to run a workshop https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-good-practices-to-run-a-workshop Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - What do we need to take care when running a workshop? - What are the good practices? Objectives of the tutorial: - Reflect on the things to do before, during and after a workshop
Contributing to the Galaxy Training Material - Running the Galaxy Training material website locally

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Running the Galaxy Training material website locally https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-running-the-galaxy-training-material-website-locally Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How to setup the infrastructure to build training webpages? Objectives of the tutorial: - Installing packages needed for rendering the webpage - Running the GTN material website locally - Tracking changes to the content live in the webbrowser
Contributing to the Galaxy Training Material - Generating PDF artefacts of the website

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Generating PDF artefacts of the website https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-generating-pdf-artefacts-of-the-website Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How to generate PDF of the different tutorials and slides? Objectives of the tutorial: - Generating PDFs
Contributing to the Galaxy Training Material - Including a new topic

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Including a new topic https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-including-a-new-topic Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How to include a new topic? Objectives of the tutorial: - Create a new topic - Set up the metadata for a topic
Contributing to the Galaxy Training Material - Creating a new tutorial - Creating Interactive Galaxy Tours

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Creating a new tutorial - Creating Interactive Galaxy Tours https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-creating-a-new-tutorial-creating-interactive-galaxy-tours Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - What is a Interactive Galaxy Tour? - How can we create an Interactive Tour? Objectives of the tutorial: - Creating a Galaxy tour from scratch - Deploying and running a tour
Contributing to the Galaxy Training Material - Creating a new tutorial - Defining the technical infrastructure

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Creating a new tutorial - Defining the technical infrastructure https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-creating-a-new-tutorial-defining-the-technical-infrastructure Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How can we define the technical infrastructure for a tutorial? - How to define the tools needed for a tutorial? - How to add the needed data directly in an instance? - How to add the workflows related to a tutorial? - How can we check the technical infrastructure is working? - How can we make an existing Galaxy instance able to run a tutorial? Objectives of the tutorial: - Extracting the technical description for a tutorial - Populating an existing instance with the needed tools, data and workflows for a tutorial - Creating a Galaxy Docker flavor with the needed tools, data and workflows for a tutorial - Testing the Galaxy Docker flavor of a tutorial
Contributing to the Galaxy Training Material - Creating a new tutorial - Defining metadata

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Creating a new tutorial - Defining metadata https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-creating-a-new-tutorial-defining-metadata Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - What does Metadata in GTN means? - Which kind of metadata can I annotate? - For what is metadata used? Objectives of the tutorial: - Adding metadata for a tutorial - Defining learning objectives
Contributing to the Galaxy Training Material - Contributing with GitHub via command-line

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Contributing with GitHub via command-line https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-contributing-with-github-via-command-line Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How can I contribute to an open-source project with GitHub? - What is the GitHub flow? Objectives of the tutorial: - Fork a repository on GitHub - Clone a remote repository locally - Create a branch - Commit changes - Push changes to a remote repository - Create a pull request - Update a pull request
Contributing to the Galaxy Training Material - Creating a new tutorial - Writing content in Markdown

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Resource type: Tutorial

Contributing to the Galaxy Training Material - Creating a new tutorial - Writing content in Markdown https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-creating-a-new-tutorial-writing-content-in-markdown Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy. Questions of the tutorial: - How to write a tutorial with hands-on? - What are the different boxes? - How can I add a caption to an image? Objectives of the tutorial: - Create hands-on - Use the different boxes
Contributing to the Galaxy Training Material - Overview of the Galaxy Training Material

Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them...

Contributing to the Galaxy Training Material - Overview of the Galaxy Training Material https://tess.elixir-europe.org/materials/contributing-to-the-galaxy-training-material-overview-of-the-galaxy-training-material Galaxy is a great solution to train the bioinformatics concepts: numerous bioinformatics tools are available (almost 5,000 in the ToolShed), it can be used by people without amy computer science skills, it trains to use technology, outlining available resources and efforts that have made them accessible to researchers, it is scalable. In 2016, the Galaxy Training Network decide to set up a new infrastructure for delivering easily Galaxy related training material. The idea was to develop something open and online based on a community effort, as always in Galaxy.
ChIP-Seq data analysis - Identification of the binding sites of the Estrogen receptor

ChIP-sequencing is a method used to analyze protein interactions with DNA. Questions of the tutorial: - How is raw ChIP-seq data processed and analyzed? - What are the binding sites of the Estrogen receptor? Objectives of the tutorial: - Inspect read quality with FastQC - Map reads with...

Resource type: Tutorial

ChIP-Seq data analysis - Identification of the binding sites of the Estrogen receptor https://tess.elixir-europe.org/materials/chip-seq-data-analysis-identification-of-the-binding-sites-of-the-estrogen-receptor ChIP-sequencing is a method used to analyze protein interactions with DNA. Questions of the tutorial: - How is raw ChIP-seq data processed and analyzed? - What are the binding sites of the Estrogen receptor? Objectives of the tutorial: - Inspect read quality with FastQC - Map reads with Bowtie2 - Assess the quality of an ChIP-seq experiments - Extract coverage files - Call enriched regions or peaks
Development in Galaxy - Tool Shed: sharing Galaxy tools

Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ... Questions of the tutorial: - What is a Tool Shed? - How to install tools and workflows from a Tool Shed into a Galaxy instance? - What...

Resource type: Slides

Development in Galaxy - Tool Shed: sharing Galaxy tools https://tess.elixir-europe.org/materials/development-in-galaxy-tool-shed-sharing-galaxy-tools Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ... Questions of the tutorial: - What is a Tool Shed? - How to install tools and workflows from a Tool Shed into a Galaxy instance? - What are the Tool Shed repository types? - How to publish with Planemo? Objectives of the tutorial: - Discover what is a Tool Shed - Be able to install tools and workflows from a Tool Shed into a Galaxy instance - Be able to publish tools with Planemo
Development in Galaxy - Galaxy Interactive Tours

Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ... Questions of the tutorial: - What is a Galaxy Interactive Tour? - How to create a Galaxy Interactive Tour? Objectives of the...

Resource type: Slides

Development in Galaxy - Galaxy Interactive Tours https://tess.elixir-europe.org/materials/development-in-galaxy-galaxy-interactive-tours Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ... Questions of the tutorial: - What is a Galaxy Interactive Tour? - How to create a Galaxy Interactive Tour? Objectives of the tutorial: - Discover what is a Galaxy Interactive Tour - Be able to create a Galaxy Interactive Tour - Be able to add a Galaxy Interactive Tour in a Galaxy instance
Development in Galaxy - Tool development and integration into Galaxy

Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ... Questions of the tutorial: - What is a tool for Galaxy? - How to build a tool/wrapper with the good practices? - How to deal with the...

Resource type: Tutorial

Development in Galaxy - Tool development and integration into Galaxy https://tess.elixir-europe.org/materials/development-in-galaxy-tool-development-and-integration-into-galaxy Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ... Questions of the tutorial: - What is a tool for Galaxy? - How to build a tool/wrapper with the good practices? - How to deal with the tool environment? Objectives of the tutorial: - Discover what is a wrapper and its structure - Use the Planemo utilities to develop a good wrapper - Deal with the dependencies - Write functional tests - Make a tool ready for publishing in a ToolShed
Development in Galaxy - Galaxy from a developer point of view

Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ...

Development in Galaxy - Galaxy from a developer point of view https://tess.elixir-europe.org/materials/development-in-galaxy-introduction Galaxy is an open-source project. Everyone can contribute to its development with core Galaxy development, integration of softwares in Galaxy environment, ...
Variant Analysis - Exome sequencing data analysis

Exome sequencing means that all protein-coding genes in a genome are sequenced Questions of the tutorial: - How to identify the genetic variation with the use of exome sequencing? - What is the pipeline of the process of finding genetic variation which caused the disease? Objectives of the...

Resource type: Tutorial

Variant Analysis - Exome sequencing data analysis https://tess.elixir-europe.org/materials/variant-analysis-exome-sequencing-data-analysis Exome sequencing means that all protein-coding genes in a genome are sequenced Questions of the tutorial: - How to identify the genetic variation with the use of exome sequencing? - What is the pipeline of the process of finding genetic variation which caused the disease? Objectives of the tutorial: - Identification of the genetic variation using the exome sequencing - Using FreeBayes calls for variants generating - Variant analysis and GEMINI queries