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36 materials found

Authors: David Wishart  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

Informatics and Statistics for Metabolomics 2018 Module 6-Future of Metabolomics

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2018 Module 3-Databases for Chemical, Spectral, and Biological Data

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2018 Module 2-Metabolite Identification and Annotation

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2018 Module 1-Introduction to Metabolomics

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2017 Module 6-Future of Metabolomics

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, conducting univariate and multivariate statistics, working with metabolomic databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2017 Module 5-MetaboAnalyst

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, conducting univariate and multivariate statistics, working with metabolomic databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2017 Module 3-Databases for Chemical, Spectral, and Biological Data

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, conducting univariate and multivariate statistics, working with metabolomic databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2017 Module 2-Metabolite Identification and Annotation

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, conducting univariate and multivariate statistics, working with metabolomic databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2017 Module 1-Introduction to Metabolomics

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, conducting univariate and multivariate statistics, working with metabolomic databases, and exploring chemical databases.

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 - 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 - 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 - 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 - 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 - 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 - 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 - 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 - 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 - 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 - 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...

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

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 - 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 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, ...

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 - Introduction to Variant analysis

Exome sequencing means that all protein-coding genes in a genome are sequenced

Galaxy Server administration - Docker and Galaxy

Resources related to configuration and maintenance of Galaxy servers

Questions of the tutorial:

  • Why Docker? What is it?
  • How to use Docker?
  • How to integrate Galaxy in Docker to facilitate its deployment?

Objectives of the tutorial:

  • Docker basics
  • Galaxy Docker image (usage)
  • Galaxy...

Resource type: Slides

Introduction to Galaxy Analyses - From peaks to genes

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:

  • How to use Galaxy?
  • How to get...

Resource type: Tutorial

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.