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17 materials found

Scientific topics: Protein modifications  or Computer science 


Expanding the SPHN RDF Schema

This training module will provide researchers with an introduction on how to expand the SPHN RDF Schema using an ontology editor.

Scientific topics: Ontology and terminology, Medical informatics, FAIR data, Data management, Computer science

Operations: Editing, Ontology visualisation, Visualisation, Data handling

Keywords: Clinical data, Data semantics, FAIR, Ontology editing, Protegé, RDF, OWL

Resource type: Video, Training materials, E-learning

Expanding the SPHN RDF Schema http://tess.elixir-uk.org/materials/expanding-the-sphn-rdf-schema This training module will provide researchers with an introduction on how to expand the SPHN RDF Schema using an ontology editor. Kristin Gnodke Sabine Österle Ontology and terminology Medical informatics FAIR data Data management Computer science Clinical data, Data semantics, FAIR, Ontology editing, Protegé, RDF, OWL Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
Training Primer (RDF and SPARQL)

This training provides a first introduction to RDF and SPARQL.

Scientific topics: Computer science, Data management, FAIR data, Medical informatics, Ontology and terminology

Operations: Query and retrieval, Database search, Data handling, Data retrieval

Keywords: Clinical data, SPARQL, Query data, RDF, Knowledge graph, Triplestore, Ontology

Resource type: Video, Training materials, E-learning

Training Primer (RDF and SPARQL) http://tess.elixir-uk.org/materials/training-primer-rdf-and-sparql This training provides a first introduction to RDF and SPARQL. Sabine Österle Computer science Data management FAIR data Medical informatics Ontology and terminology Clinical data, SPARQL, Query data, RDF, Knowledge graph, Triplestore, Ontology Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
Semantic Standards

This training module provides an introduction on the key semantic standards used within SPHN.

Scientific topics: Ontology and terminology, Medical informatics, FAIR data, Data management, Computer science

Operations: Standardisation and normalisation, Data handling

Keywords: Clinical data, Data semantics, FAIR, Standards, Ontology, SNOMED CT, LOINC, ATC, CHOP, ICD

Resource type: Video, Training materials, E-learning

Semantic Standards http://tess.elixir-uk.org/materials/semantic-standards This training module provides an introduction on the key semantic standards used within SPHN. Sabine Österle Ontology and terminology Medical informatics FAIR data Data management Computer science Clinical data, Data semantics, FAIR, Standards, Ontology, SNOMED CT, LOINC, ATC, CHOP, ICD Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
RDF Schema and Data Visualization

This training module will provide researchers with an introduction on how to explore and visualize the SPHN ontology and mock data.

Scientific topics: Data visualisation, Medical informatics, FAIR data, Data management, Computer science

Operations: Ontology visualisation, Visualisation, Data retrieval, Data handling, Query and retrieval

Keywords: Clinical data, SPARQL, Data visualization, RDF, Knowledge graph, GraphDB, Mock data

Resource type: Video, Training materials, Mock data, E-learning

RDF Schema and Data Visualization http://tess.elixir-uk.org/materials/rdf-schema-and-data-visualization This training module will provide researchers with an introduction on how to explore and visualize the SPHN ontology and mock data. Vasundra Touré Sabine Österle Data visualisation Medical informatics FAIR data Data management Computer science Clinical data, SPARQL, Data visualization, RDF, Knowledge graph, GraphDB, Mock data Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
Validate Graph Data with SHACL

This training module will provide researchers with an introduction on SHACL for RDF graphs validation.

Scientific topics: Computer science, Data management, FAIR data, Medical informatics

Operations: Data handling, Validation

Keywords: Clinical data, SHACL, Data validation, RDF, Knowledge graph, GraphDB, RDF, RDF graph validation

Resource type: Video, Training materials, E-learning

Validate Graph Data with SHACL http://tess.elixir-uk.org/materials/validate-graph-data-with-shacl This training module will provide researchers with an introduction on SHACL for RDF graphs validation. Sabine Österle Vasundra Touré Computer science Data management FAIR data Medical informatics Clinical data, SHACL, Data validation, RDF, Knowledge graph, GraphDB, RDF, RDF graph validation Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
How to use Python and R with RDF Data

This training module will provide researchers with an introduction on how use R and Python in combination with SPARQL to query RDF data.

Scientific topics: Medical informatics, FAIR data, Data management, Computer science

Operations: Data retrieval, Data handling, Query and retrieval

Keywords: Clinical data, SPARQL, Query data, RDF, Knowledge graph, Python, R, GraphDB

Resource type: Video, Training materials, Mock data, E-learning

How to use Python and R with RDF Data http://tess.elixir-uk.org/materials/how-to-use-python-and-r-with-rdf-data This training module will provide researchers with an introduction on how use R and Python in combination with SPARQL to query RDF data. Sabine Österle Vasundra Touré Medical informatics FAIR data Data management Computer science Clinical data, SPARQL, Query data, RDF, Knowledge graph, Python, R, GraphDB Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
Querying Data with SPARQL

This training module will provide researcher with an introduction to SPARQL queries for health-related data.

Scientific topics: Computer science, Data management, FAIR data, Medical informatics

Operations: Query and retrieval, Database search, Data handling, Data retrieval

Keywords: Clinical data, SPARQL, Query data, RDF, Knowledge graph, SNOMED CT, LOINC

Resource type: Video, Training materials with mock data, E-learning

Querying Data with SPARQL http://tess.elixir-uk.org/materials/querying-data-with-sparql This training module will provide researcher with an introduction to SPARQL queries for health-related data. Philip Krauss Sabine Österle Computer science Data management FAIR data Medical informatics Clinical data, SPARQL, Query data, RDF, Knowledge graph, SNOMED CT, LOINC Research Scientists Data Managers Biomedical Researchers Bioinformaticians Data Scientists
Machine Learning & BioStatistics Hackathon 2020

Materials created at the Machine Learning and BioStatistics hackathon organised by ELIXIR-GR (CERTH) in October and November 2020.

Scientific topics: Computer science, Statistics and probability, Machine learning

Keywords: machine learning, biostatistics, eLearning, EeLP

Resource type: Training materials

Machine Learning & BioStatistics Hackathon 2020 http://tess.elixir-uk.org/materials/machine-learning-biostatistics-hackathon-2020 Materials created at the Machine Learning and BioStatistics hackathon organised by ELIXIR-GR (CERTH) in October and November 2020. Computer science Statistics and probability Machine learning machine learning, biostatistics, eLearning, EeLP Life Science Researchers statisticians Training Designers Training instructors Trainers
HPC Hackathon Materials

Materials developed at the HPC hackathon hosted by ELIXIR-SI (UL) in May and June 2021.

Scientific topics: Computer science

Keywords: HPC, high-performance computing, eLearning, EeLP

Resource type: Training materials

HPC Hackathon Materials http://tess.elixir-uk.org/materials/hpc-hackathon-materials Materials developed at the HPC hackathon hosted by ELIXIR-SI (UL) in May and June 2021. Computer science HPC, high-performance computing, eLearning, EeLP Life Science Researchers Training Designers Training instructors Trainers
Containers and Workflows training materials hackathon

Materials developed at the Containers and Workflows hackathon organised by ELIXIR-BE (VIB) in February and April 2021.

Scientific topics: Computer science

Keywords: Containers, Workflows, eLearning, EeLP

Resource type: Training materials

Containers and Workflows training materials hackathon http://tess.elixir-uk.org/materials/containers-and-workflows-training-materials-hackathon Materials developed at the Containers and Workflows hackathon organised by ELIXIR-BE (VIB) in February and April 2021. Computer science Containers, Workflows, eLearning, EeLP Life Science Researchers Training Designers Training instructors Trainers
ELIXIR AAI Engagement Meetings Materials

ELIXIR AAI is an ELIXIR Compute Platform service that other services can use to authenticate their users and manage their access rights. In the **ELIXIR AAI Tas**, we are preparing regular **Community engagement meetings** where we would like to share and discuss together new AAI needs,...

Scientific topics: Computer science

Keywords: AAI, IAM, Authentication, authorisation

Resource type: Documentation, Presentation

ELIXIR AAI Engagement Meetings Materials http://tess.elixir-uk.org/materials/elixir-aai-engagement-meetings-materials ELIXIR AAI is an ELIXIR Compute Platform service that other services can use to authenticate their users and manage their access rights. In the **ELIXIR AAI Tas**, we are preparing regular **Community engagement meetings** where we would like to share and discuss together new AAI needs, requirements and ideas collected from the community, as well as share success stories with other infrastructures. Topics will be selected based on needs and interest and also in regard to future migration to LS AAI. Computer science AAI, IAM, Authentication, authorisation software developers, bioinformaticians
WEBINAR: Making sense of phosphoproteomics data with Phosphomatics

This Zenodo record includes training materials associated with the Australian BioCommons webinar ‘Making sense of phosphoproteomics data with Phosphomatics’. This webinar took place on 2 June 2021.

Scientific topics: Protein modifications, Proteomics

Keywords: Phosphoproteomics

WEBINAR: Making sense of phosphoproteomics data with Phosphomatics http://tess.elixir-uk.org/materials/webinar-making-sense-of-phosphoproteomics-data-with-phosphomatics This Zenodo record includes training materials associated with the Australian BioCommons webinar ‘Making sense of phosphoproteomics data with Phosphomatics’. This webinar took place on 2 June 2021. Protein modifications Proteomics Phosphoproteomics
DE-Sim examples, tutorials, and documentation

*DE-Sim* is an open-source, Python-based object-oriented discrete-event simulation (DES) tool that makes it easy to use large, heterogeneous datasets and high-level data science tools such as [NumPy](https://numpy.org/), [Scipy](https://scipy.org/scipylib/index.html),...

Scientific topics: Computational biology, Mathematics, Computer science, Simulation experiment

Operations: Visualisation, Modelling and simulation

Keywords: data-driven modeling, Computational modelling, discrete-event simulation, DES, object-oriented programming, Python, data visualization, Data Science

Resource type: examples, Tutorial, Jupyter notebook, API reference

DE-Sim examples, tutorials, and documentation http://tess.elixir-uk.org/materials/de-sim-examples-tutorials-and-documentation *DE-Sim* is an open-source, Python-based object-oriented discrete-event simulation (DES) tool that makes it easy to use large, heterogeneous datasets and high-level data science tools such as [NumPy](https://numpy.org/), [Scipy](https://scipy.org/scipylib/index.html), [pandas](https://pandas.pydata.org/), and [SQLAlchemy](https://www.sqlalchemy.org/) to build and simulate complex computational models. Similar to [Simula](http://www.simula67.info/), *DE-Sim* models are implemented by defining logical process objects which read the values of a set of shared variables and schedule events to modify their values at discrete instants in time. This website provides examples, tutorials, and documentation for *DE-Sim*. Computational biology Mathematics Computer science Simulation experiment data-driven modeling, Computational modelling, discrete-event simulation, DES, object-oriented programming, Python, data visualization, Data Science computational scientists Computational biologists bioinformaticians software engineers programmers
Integrating to ELIXIR AAI -- instructions for developers

This is a collection of videos, presentations and on-line materials for developers and administrators for integrating a service to ELIXIR AAI, the ELIXIR Compute platform service for user authentication and authorisation.

Scientific topics: Computer science

Keywords: AAI, IAM, Authentication, authorisation

Resource type: Webinar, Presentation, Documentation

Integrating to ELIXIR AAI -- instructions for developers http://tess.elixir-uk.org/materials/integrating-to-elixir-aai-instruction-for-developers This is a collection of videos, presentations and on-line materials for developers and administrators for integrating a service to ELIXIR AAI, the ELIXIR Compute platform service for user authentication and authorisation. Computer science AAI, IAM, Authentication, authorisation software developers, bioinformaticians
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: Biology, Bioinformatics, Computer science

Keywords: High performance computing, high-performance computing

Resource type: Tutorial, Slideshow, e-learning

High Performance Computing (HPC) in Life Sciences http://tess.elixir-uk.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. Biology Bioinformatics Computer science High performance computing, high-performance computing PhD students All postgraduates Life Science Researchers
Adding schema.org to a GitHub Pages site

This guide will show you how to do add schema.org to GitHub Pages.

Scientific topics: Computer science

Keywords: Mark-up, Bioschemas, Interoperability

Resource type: Training materials

Adding schema.org to a GitHub Pages site http://tess.elixir-uk.org/materials/adding-schema-org-to-a-github-pages-site This guide will show you how to do add schema.org to GitHub Pages. Raniere Silva Computer science Mark-up, Bioschemas, Interoperability web developers System administrators
Introduction to Linux Command Line

Introduction to Linux basic command line

Scientific topics: Computer science

Keywords: Linux basics

Introduction to Linux Command Line http://tess.elixir-uk.org/materials/introduction-to-linux-command-line Introduction to Linux basic command line Computer science Linux basics 2015-10-28 2017-10-09