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16 materials found

Authors: erasche  or shiltemann 


Galaxy Server administration - Ansible

Resources related to configuration and maintenance of Galaxy servers Questions of the tutorial: - Why Ansible? - How and when to use Ansible? - How to write a role? - How to leverage community build roles? Objectives of the tutorial: - Learn Ansible basics - Write a simple role - Install a...

Resource type: Tutorial

Galaxy Server administration - Ansible http://tess.elixir-uk.org/materials/galaxy-server-administration-ansible Resources related to configuration and maintenance of Galaxy servers Questions of the tutorial: - Why Ansible? - How and when to use Ansible? - How to write a role? - How to leverage community build roles? Objectives of the tutorial: - Learn Ansible basics - Write a simple role - Install a role from Ansible Galaxy
Data Manipulation - Collections: Rule Based Uploader

A collection of microtutorials explaining data manipulation within Galaxy Questions of the tutorial: - How to use the rule based uploader to create complex collections Objectives of the tutorial: - Learn about the Rule Based Uploader

Resource type: Tutorial

Data Manipulation - Collections: Rule Based Uploader http://tess.elixir-uk.org/materials/data-manipulation-collections-rule-based-uploader A collection of microtutorials explaining data manipulation within Galaxy Questions of the tutorial: - How to use the rule based uploader to create complex collections Objectives of the tutorial: - Learn about the Rule Based Uploader
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 http://tess.elixir-uk.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 - 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 http://tess.elixir-uk.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 - 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 http://tess.elixir-uk.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 http://tess.elixir-uk.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 - 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 http://tess.elixir-uk.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
Development in Galaxy - Visualizations: generic plugins

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: - How can visualization plugins benefit science? Objectives of the tutorial: - Implement a first Galaxy...

Resource type: Tutorial

Development in Galaxy - Visualizations: generic plugins http://tess.elixir-uk.org/materials/development-in-galaxy-visualizations-generic-plugins 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: - How can visualization plugins benefit science? Objectives of the tutorial: - Implement a first Galaxy visualization - Understand the client side vs. server side principle
Development in Galaxy - Galaxy Interactive Environments

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 are Galaxy Interactive Environments (GIEs)? - How to enable GIEs in Galaxy? - How to develop your own...

Resource type: Slides

Development in Galaxy - Galaxy Interactive Environments http://tess.elixir-uk.org/materials/development-in-galaxy-galaxy-interactive-environments 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 are Galaxy Interactive Environments (GIEs)? - How to enable GIEs in Galaxy? - How to develop your own GIE? Objectives of the tutorial: - Implement a Hello-World Galaxy Interactive Environment
Development in Galaxy - Visualizations: charts plugins

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: - How can I make a custom plugin for Charts? Objectives of the tutorial: - Learn how to add custom...

Resource type: Tutorial

Development in Galaxy - Visualizations: charts plugins http://tess.elixir-uk.org/materials/development-in-galaxy-visualizations-charts-plugins 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: - How can I make a custom plugin for Charts? Objectives of the tutorial: - Learn how to add custom javascript plugins to the Galaxy Charts framework
Galaxy Server administration - Advanced customisation of a Galaxy instance

Resources related to configuration and maintenance of Galaxy servers

Resource type: Slides

Galaxy Server administration - Advanced customisation of a Galaxy instance http://tess.elixir-uk.org/materials/galaxy-server-administration-advanced-customisation-of-a-galaxy-instance Resources related to configuration and maintenance of Galaxy servers
Introduction to Galaxy Analyses - Galaxy 101

Galaxy is a scientific workflow, data integration, and data and analysis persistence and publishing platform that aims to make computational biology accessible to research scientists that do not have computer programming experience. Questions of the tutorial: - Which coding exon has the...

Resource type: Tutorial

Introduction to Galaxy Analyses - Galaxy 101 http://tess.elixir-uk.org/materials/galaxy-introduction-galaxy-101 Galaxy is a scientific workflow, data integration, and data and analysis persistence and publishing platform that aims to make computational biology accessible to research scientists that do not have computer programming experience. Questions of the tutorial: - Which coding exon has the highest number of single nucleotide polymorphisms (SNPs) on human chromosome 22? Objectives of the tutorial: - Familiarize yourself with the basics of Galaxy - Learn how to obtain data from external sources - Learn how to run tools - Learn how histories work - Learn how to create a workflow - Learn how to share your work
Introduction to Galaxy Analyses - Introduction to Galaxy

Galaxy is a scientific workflow, data integration, and data and analysis persistence and publishing platform that aims to make computational biology accessible to research scientists that do not have computer programming experience.

Introduction to Galaxy Analyses - Introduction to Galaxy http://tess.elixir-uk.org/materials/galaxy-introduction-introduction Galaxy is a scientific workflow, data integration, and data and analysis persistence and publishing platform that aims to make computational biology accessible to research scientists that do not have computer programming experience.
Metagenomics - Analyses of metagenomics data - The global picture

Metagenomics is a discipline that enables the genomic study of uncultured microorganisms Questions of the tutorial: - How to analyze metagenomics data? - What information can be extracted of metagenomics data? - What is the difference between amplicon and shotgun data? - What are the difference...

Resource type: Tutorial

Metagenomics - Analyses of metagenomics data - The global picture http://tess.elixir-uk.org/materials/metagenomics-analyses-of-metagenomics-data-the-global-picture Metagenomics is a discipline that enables the genomic study of uncultured microorganisms Questions of the tutorial: - How to analyze metagenomics data? - What information can be extracted of metagenomics data? - What is the difference between amplicon and shotgun data? - What are the difference in the analyses of amplicon and shotgun data? Objectives of the tutorial: - Choosing the best approach to analyze metagenomics data - Selection of tools to analyze amplicon data or shotgun data - Visualisation of a community structure
Metagenomics - Introduction to metagenomics

Metagenomics is a discipline that enables the genomic study of uncultured microorganisms

Metagenomics - Introduction to metagenomics http://tess.elixir-uk.org/materials/metagenomics-introduction Metagenomics is a discipline that enables the genomic study of uncultured microorganisms
Metagenomics - 16S Microbial Analysis with Mothur

Metagenomics is a discipline that enables the genomic study of uncultured microorganisms Questions of the tutorial: - What is the effect of normal variation in the gut microbiome on host health? Objectives of the tutorial: - Analyze of 16S rRNA sequencing data using the Mothur toolsuite in...

Resource type: Tutorial

Metagenomics - 16S Microbial Analysis with Mothur http://tess.elixir-uk.org/materials/metagenomics-16s-microbial-analysis-with-mothur Metagenomics is a discipline that enables the genomic study of uncultured microorganisms Questions of the tutorial: - What is the effect of normal variation in the gut microbiome on host health? Objectives of the tutorial: - Analyze of 16S rRNA sequencing data using the Mothur toolsuite in Galaxy