Register training material
1395 materials found

250: Working with genomic data in R with the DECIPHER package

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Genomic data

250: Working with genomic data in R with the DECIPHER package https://tess.elixir-europe.org/materials/250-working-with-genomic-data-in-r-with-the-decipher-package Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Genomic data
500: Effectively using the DelayedArray framework to support the analysis of large datasets

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Large data

500: Effectively using the DelayedArray framework to support the analysis of large datasets https://tess.elixir-europe.org/materials/500-effectively-using-the-delayedarray-framework-to-support-the-analysis-of-large-datasets Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Large data
510: Maintaining your Bioconductor package

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Packages

510: Maintaining your Bioconductor package https://tess.elixir-europe.org/materials/510-maintaining-your-bioconductor-package Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Packages
R / Bioconductor for open-source analysis and comprehension of high-throughput genomic data

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Resource type: Talk

R / Bioconductor for open-source analysis and comprehension of high-throughput genomic data https://tess.elixir-europe.org/materials/r-bioconductor-for-open-source-analysis-and-comprehension-of-high-throughput-genomic-data Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images.
Open Targets: Using Genetics and Functional Genomics to Identify and Prioritise Targets for New Medicines

Materials of the ASHG Workshop 2018, that will guide you through the detailed functionality of Open Targets' new User Interface for Statistical Geneticists - Open Targets Genetics.

Keywords: Open Targets Genetics

Open Targets: Using Genetics and Functional Genomics to Identify and Prioritise Targets for New Medicines https://tess.elixir-europe.org/materials/open-targets-using-genetics-and-functional-genomics-to-identify-and-prioritise-targets-for-new-medicines Materials of the ASHG Workshop 2018, that will guide you through the detailed functionality of Open Targets' new User Interface for Statistical Geneticists - Open Targets Genetics. Open Targets Genetics
PanelApp Reviewer’s Guide

This presentation provides a guide to how to make reviews of gene-disease evidence in the PanelApp database.

Scientific topics: Rare diseases, Genomics

Keywords: Gene lists, Genomics, human disease, Biocuration

Resource type: knowledgebase

PanelApp Reviewer’s Guide https://tess.elixir-europe.org/materials/panelapp-reviewer-s-guide This presentation provides a guide to how to make reviews of gene-disease evidence in the PanelApp database. Rare diseases Genomics Gene lists, Genomics, human disease, Biocuration Clinical Scientists clinicians and informaticians interested in cancer genetics Researchers
BioC 2018: Where Software and Biology Connect

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Keywords: Conference

BioC 2018: Where Software and Biology Connect https://tess.elixir-europe.org/materials/bioc-2018-where-software-and-biology-connect Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images. Conference
HCABrowser for discovery and access

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Resource type: Talk

HCABrowser for discovery and access https://tess.elixir-europe.org/materials/hcabrowser-for-discovery-and-access Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images.
HCAMatrixBrowser for retrieving count matrices

Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an...

Resource type: Talk

HCAMatrixBrowser for retrieving count matrices https://tess.elixir-europe.org/materials/hcamatrixbrowser-for-retrieving-count-matrices Bioconductor provides tools for the analysis and comprehension of high-throughput genomic data. Bioconductor uses the R statistical programming language, and is open source and open development. It has two releases each year, 1560 software packages, and an active user community. Bioconductor is also available as an AMI (Amazon Machine Image) and a series of Docker images.
Getting started with Bioschemas

### "How to do" guidelines about: * What and why schema.org * What and why bioschemas.org * How-to select the right profile for your resource * How-to mark up your own resource with Bioschemas

Keywords: Bioschemas, Standards

Getting started with Bioschemas https://tess.elixir-europe.org/materials/getting-started-with-bioschemas ### "How to do" guidelines about: * What and why schema.org * What and why bioschemas.org * How-to select the right profile for your resource * How-to mark up your own resource with Bioschemas Bioschemas, Standards
CWL User Guide

This guide will introduce you to writing tool wrappers and workflows using the Common Workflow Language (CWL). This guide describes the current stable specification, version 1.0.

Keywords: CWL, commonwl, Workflows

Resource type: Tutorial

CWL User Guide https://tess.elixir-europe.org/materials/cwl-user-guide This guide will introduce you to writing tool wrappers and workflows using the Common Workflow Language (CWL). This guide describes the current stable specification, version 1.0. CWL, commonwl, Workflows bioinformaticians tool authors
High Performance Computing (HPC) in Life Sciences

High-throughput sequencing data analysis requires new technical competencies and HPC is one of them. SIB has developed an e-learning module in HPC, as part of the ELIXIR-EXCELERATE project. e-learning has the potential to reach a wider audience, in any location and any time, and can be used...

Scientific topics: Computer science, Bioinformatics, Biology

Keywords: High performance computing, high-performance computing

Resource type: Tutorial, Slideshow, e-learning

High Performance Computing (HPC) in Life Sciences https://tess.elixir-europe.org/materials/high-performance-computing-hpc-in-life-sciences High-throughput sequencing data analysis requires new technical competencies and HPC is one of them. SIB has developed an e-learning module in HPC, as part of the ELIXIR-EXCELERATE project. e-learning has the potential to reach a wider audience, in any location and any time, and can be used either as the electronic component of a blended training format or as a self-running learning product. Computer science Bioinformatics Biology High performance computing, high-performance computing PhD students All postgraduates Life Science Researchers
NanoCommons - Data Management in Nano Safety Research

Nanosafety research is rapidly transforming into a highly competitive and data-intensive field. Translational research, the introduction of nanoinformatics and the shift towards big data introduce the need for complex data capture, storage, handling, and analysis. This combination is called data...

Scientific topics: Data management

Resource type: Video

NanoCommons - Data Management in Nano Safety Research https://tess.elixir-europe.org/materials/nanocommons-data-management-in-nano-safety-research Nanosafety research is rapidly transforming into a highly competitive and data-intensive field. Translational research, the introduction of nanoinformatics and the shift towards big data introduce the need for complex data capture, storage, handling, and analysis. This combination is called data management and is the most neglected aspect of scientific research. Data management
bio.tools & EDAM drop-in hackathon & discussions

bio.tools, EDAM drop-in hackathon and discussions

Keywords: biohackaton 2018

bio.tools & EDAM drop-in hackathon & discussions https://tess.elixir-europe.org/materials/bio-tools-edam-drop-in-hackathon-discussions bio.tools, EDAM drop-in hackathon and discussions biohackaton 2018
Application of RDF-based models and tools for enhancing interoperable

Application of RDF-based models and tools for enhancing interoperable use of biomedical resources

Keywords: biohackaton 2018

Application of RDF-based models and tools for enhancing interoperable https://tess.elixir-europe.org/materials/application-of-rdf-based-models-and-tools-for-enhancing-interoperable Application of RDF-based models and tools for enhancing interoperable use of biomedical resources biohackaton 2018
Development of a GA4GH-compliant, language-agnostic workflow execution service

Development of a GA4GH-compliant, language-agnostic workflow execution service

Keywords: biohackaton 2018

Development of a GA4GH-compliant, language-agnostic workflow execution service https://tess.elixir-europe.org/materials/development-of-a-ga4gh-compliant-language-agnostic-workflow-execution-service Development of a GA4GH-compliant, language-agnostic workflow execution service biohackaton 2018
Exploring Pharmacogenomic LOD for Molecular Explanations of Gene-Drug Relationships

Exploring Pharmacogenomic LOD for Molecular Explanations of Gene-Drug Relationships

Keywords: biohackaton 2018

Exploring Pharmacogenomic LOD for Molecular Explanations of Gene-Drug Relationships https://tess.elixir-europe.org/materials/exploring-pharmacogenomic-lod-for-molecular-explanations-of-gene-drug-relationships Exploring Pharmacogenomic LOD for Molecular Explanations of Gene-Drug Relationships biohackaton 2018
From Biotea to Bioschemas: definition of profiles required to represent scholarly publications

From Biotea to Bioschemas: definition of profiles required to represent scholarly publications

Keywords: biohackaton 2018

From Biotea to Bioschemas: definition of profiles required to represent scholarly publications https://tess.elixir-europe.org/materials/from-biotea-to-bioschemas-definition-of-profiles-required-to-represent-scholarly-publications From Biotea to Bioschemas: definition of profiles required to represent scholarly publications biohackaton 2018
Data clearinghouse, validation and curation of BioSamples/ENA/Breeding API endpoints/MAR databases

Data clearinghouse, validation and curation of BioSamples/ENA/Breeding API endpoints/MAR databases

Keywords: biohackaton 2018

Data clearinghouse, validation and curation of BioSamples/ENA/Breeding API endpoints/MAR databases https://tess.elixir-europe.org/materials/data-clearinghouse-validation-and-curation-of-biosamples-ena-breeding-api-endpoints-mar-databases Data clearinghouse, validation and curation of BioSamples/ENA/Breeding API endpoints/MAR databases biohackaton 2018
Import workflows into TeSS Concept Maps

Import workflows into TeSS Concept Maps

Keywords: biohackaton 2018

Import workflows into TeSS Concept Maps https://tess.elixir-europe.org/materials/import-workflows-into-tess-concept-maps Import workflows into TeSS Concept Maps biohackaton 2018
Assessing the FAIRness of Training Materials

Assessing the FAIRness of Training Materials

Keywords: biohackaton 2018

Assessing the FAIRness of Training Materials https://tess.elixir-europe.org/materials/assessing-the-fairness-of-training-materials Assessing the FAIRness of Training Materials biohackaton 2018
Alternative episodes for the 4 Open Source Software

Alternative episodes for the 4 Open Source Software (4OSS) lesson focused on different Open Source technologies: Github, Docker, Jupyter Notebook and so on

Keywords: biohackaton 2018

Alternative episodes for the 4 Open Source Software https://tess.elixir-europe.org/materials/alternative-episodes-for-the-4-open-source-software Alternative episodes for the 4 Open Source Software (4OSS) lesson focused on different Open Source technologies: Github, Docker, Jupyter Notebook and so on biohackaton 2018
JSON schema validation with ontologies

JSON schema validation with ontologies

Keywords: biohackaton 2018

JSON schema validation with ontologies https://tess.elixir-europe.org/materials/json-schema-validation-with-ontologies JSON schema validation with ontologies biohackaton 2018
Development of a catalog of federated SPARQL queries in the field of Rare Diseases

Development of a catalog of federated SPARQL queries in the field of Rare Diseases

Keywords: biohackaton 2018

Development of a catalog of federated SPARQL queries in the field of Rare Diseases https://tess.elixir-europe.org/materials/development-of-a-catalog-of-federated-sparql-queries-in-the-field-of-rare-diseases Development of a catalog of federated SPARQL queries in the field of Rare Diseases biohackaton 2018
Building a semantic search engine for biology publications using event stream processing

Building a semantic search engine for biology publications using event stream processing

Keywords: biohackaton 2018

Building a semantic search engine for biology publications using event stream processing https://tess.elixir-europe.org/materials/c-sparql-powered-querying-pipeline-of-biorxiv-publications Building a semantic search engine for biology publications using event stream processing biohackaton 2018
Adding bioschemas markup to data repository

Adding bioschemas markup to data repository

Keywords: biohackaton

Adding bioschemas markup to data repository https://tess.elixir-europe.org/materials/adding-bioschemas-markup-to-data-repository Adding bioschemas markup to data repository biohackaton
Bioconda packaging of the Regulatory Sequence Analysis Tools (RSAT)

Bioconda packaging of the Regulatory Sequence Analysis Tools (RSAT)

Keywords: biohackaton 2018

Bioconda packaging of the Regulatory Sequence Analysis Tools (RSAT) https://tess.elixir-europe.org/materials/bioconda-packaging-of-the-regulatory-sequence-analysis-tools-rsat Bioconda packaging of the Regulatory Sequence Analysis Tools (RSAT) biohackaton 2018
Improve Orphanet disease description knowledge by phenotypic automated recognition using scrapping toolkits

Improve Orphanet disease description knowledge by phenotypic automated recognition using scrapping toolkits

Keywords: biohackaton 2018

Improve Orphanet disease description knowledge by phenotypic automated recognition using scrapping toolkits https://tess.elixir-europe.org/materials/improve-orphanet-disease-description-knowledge-by-phenotypic-automated-recognition-using-scrapping-toolkits Improve Orphanet disease description knowledge by phenotypic automated recognition using scrapping toolkits biohackaton 2018
CWL support in Galaxy

CWL support in Galaxy

Keywords: biohackaton 2018

CWL support in Galaxy https://tess.elixir-europe.org/materials/cwl-support-in-galaxy CWL support in Galaxy biohackaton 2018
Transfer of Research Assets between FAIRDOM SEEKs

Transfer of Research Assets between FAIRDOM SEEKs

Keywords: biohackaton 2018

Transfer of Research Assets between FAIRDOM SEEKs https://tess.elixir-europe.org/materials/transfer-of-research-assets-between-fairdom-seeks Transfer of Research Assets between FAIRDOM SEEKs biohackaton 2018