Carole Goble
SEEK ID: https://workflowhub.eu/people/8
Location:
United Kingdom
ORCID:
https://orcid.org/0000-0003-1219-2137
Joined: 7th Apr 2020
Expertise: Not specified
Tools: Not specified
Team roles
Project administrator
Their tagsGalaxyProject SARS-CoV-2 (The University of Manchester) ; IBISBA Workflows (The University of Manchester) ; Common Workflow Language (CWL) community (The University of Manchester) ; ELIXIR Training (ELIXIR-UK) ; FAIR Computational Workflows (ELIXIR-UK) ; Specimen Data Refinery (The University of Manchester)
Related items
The Distributed System of Scientific Collections is a new world-class Research Infrastructure (RI) for Natural Science Collections. The DiSSCo RI aims to create a new business model for one European collection that digitally unifies all European natural science assets under common access, curation, policies and practices that ensure that all the data is easily Findable, Accessible, Interoperable and Reusable (FAIR principles).
DiSSCo represents the largest ever formal agreement between natural ...
Teams: Specimen Data Refinery
Web page: https://www.dissco.eu/
ELIXIR is an intergovernmental organisation that brings together life science resources from across Europe. These resources include databases, software tools, training materials, cloud storage and supercomputers.
The goal of ELIXIR is to coordinate these resources so that they form a single infrastructure. This infrastructure makes it easier for scientists to find and share data, exchange expertise, and agree on best practices. Ultimately, it will help them gain new insights into how living ...
Teams: ELIXIR Training, FAIR Computational Workflows
Web page: https://elixir-europe.org/
A space managed by WorkflowHub administrators for teams that don't want/need to manage their own space.
Teams: IBISBA Workflows, NMR Workflow, UNLOCK, NanoGalaxy, Galaxy Climate, PNDB, IMBforge, COVID-19 PubSeq: Public SARS-CoV-2 Sequence Resource, LBI-RUD, Nick-test-team, usegalaxy-eu, Italy-Covid-data-Portal, UX trial team, Integrated and Urban Plant Pathology Laboratory, SARS-CoV-2 Data Hubs, lmjxteam2, virAnnot pipeline, Ay Lab, iPC: individualizedPaediatricCure, Harkany Lab, Genomics Coordination Center, EJPRD WP13 case-studies workflows, Common Workflow Language (CWL) community, Testing, SeBiMER, IAA-CSIC, MAB - ATGC, Probabilistic graphical models, GenX, Snakemake-Workflows, ODA, IPK BIT, CO2MICS Lab, FAME, CHU Limoges - UF9481 Bioinformatique / CNR Herpesvirus, Quadram Institute Bioscience - Bioinformatics, HecatombDevelopment, Institute of Human Genetics, Testing RO Crates, Test Team, Applied Computational Biology at IEG/HMGU, INFRAFRONTIER workflows, OME, TransBioNet, OpenEBench, Galaxycompchem, Bioinformatics and Biostatistics (BIO2 ) Core, VIB Bioinformatics Core, CRC Cohort, ICAN, MustafaVoh, Single Cell Unit, CO-Graph, emo-bon, TestEMBL-EBIOntology, CINECA, Toxicology community, Pitagora-Network, Workflows Australia, Medizinisches Proteom-Center, Medical Bioinformatics, AGRF BIO, EU-Openscreen, X-omics, ELIXIR Belgium, URGI, Size Inc
Web page: Not specified
The goal of COVID-19-Biohackathon 2020 (COVID-19-BH20) is to develop and gather computational tools that can be useful for studying the biology of the virus and the disease.
The COVID-19 Programme in Workflow Hub aims to gather workflows for the analysis of COVID-19 molecular biology data and their metadata. In this programme, all workflows and their metadata will be curated and made interoperable, reusable and reproducible. All workflows and their metadata will be easily accessible to everyone ...
Teams: Connor Lab, GalaxyProject SARS-CoV-2, InSaFLU, nf-core viralrecon, CWL workflow SARS-CoV-2, V-Pipe, Test team
Web page: https://github.com/virtual-biohackathons/covid-19-bh20
The SDR is concerned with digitisation pipelines for digital access to natural history collections
The SDR integrate machine learning, Artificial Intelligence, and human approaches to extract, enhance, and annotate data from digital images and records at scale. Many collections-holding institutions still need to digitise the bulk of their collections. Digitisation takes time and resources. One of the major challenges in digitising massive collections is finding ways of ensuring high-quality ...
Space: DISSCo - Distributed System of Scientific Collections
Public web page: https://www.synthesys.info/
Start date: 1st Feb 2019
End date: 31st Dec 2023
Ongoing analysis of COVID-19 using Galaxy, BioConda and public research infrastructures https://covid19.galaxyproject.org
Space: COVID-19 Biohackathon
Public web page: https://github.com/galaxyproject/SARS-CoV-2
Presentations and events associated with work in FAIR Guiding Principles for Computational Workflows.
Space: ELIXIR
Public web page: https://workflows.community/groups/fair/
A team that gathers the workflow and workflow-related training activities related to ELIXIR, run by ELIXIR or affiliated to ELIXIR; its Hub, Nodes, platforms and communities
Space: ELIXIR
Public web page: https://elixir-europe.org
The Common Workflow Language (CWL) is an open standard for describing analysis workflows and tools in a way that makes them portable and scalable across a variety of software and hardware environments, from workstations to cluster, cloud, and high performance computing (HPC) environments. CWL is designed to meet the needs of data-intensive science, such as Bioinformatics, Medical Imaging, Astronomy, High Energy Physics, and Machine Learning.CWL is developed by a multi-vendor working group consisting ...
Abstract (Expand)
Authors: Paul Brack, Peter Crowther, Stian Soiland-Reyes, Stuart Owen, Douglas Lowe, Alan R. Williams, Quentin Groom, Mathias Dillen, Frederik Coppens, Björn Grüning, Ignacio Eguinoa, Philip Ewels, Carole Goble
Date Published: 24th Mar 2022
Publication Type: Journal
Abstract (Expand)
Authors: Alex Hardisty, Paul Brack, Carole Goble, Laurence Livermore, Ben Scott, Quentin Groom, Stuart Owen, Stian Soiland-Reyes
Date Published: 7th Mar 2022
Publication Type: Journal
Abstract (Expand)
Authors: Rafael Ferreira da Silva, Henri Casanova, Kyle Chard, Ilkay Altintas, Rosa M Badia, Bartosz Balis, Taina Coleman, Frederik Coppens, Frank Di Natale, Bjoern Enders, Thomas Fahringer, Rosa Filgueira, Grigori Fursin, Daniel Garijo, Carole Goble, Dorran Howell, Shantenu Jha, Daniel S. Katz, Daniel Laney, Ulf Leser, Maciej Malawski, Kshitij Mehta, Loic Pottier, Jonathan Ozik, J. Luc Peterson, Lavanya Ramakrishnan, Stian Soiland-Reyes, Douglas Thain, Matthew Wolf
Date Published: 1st Nov 2021
Publication Type: Journal
Abstract (Expand)
Authors: Michael R. Crusoe, Sanne Abeln, Alexandru Iosup, Peter Amstutz, John Chilton, Nebojša Tijanić, Hervé Ménager, Stian Soiland-Reyes, Carole Goble
Date Published: 14th May 2021
Publication Type: Unpublished
Abstract (Expand)
Authors: Anna-Lena Lamprecht, Magnus Palmblad, Jon Ison, Veit Schwämmle, Mohammad Sadnan Al Manir, Ilkay Altintas, Christopher J. O. Baker, Ammar Ben Hadj Amor, Salvador Capella-Gutierrez, Paulos Charonyktakis, Michael R. Crusoe, Yolanda Gil, Carole Goble, Timothy J. Griffin, Paul Groth, Hans Ienasescu, Pratik Jagtap, Matúš Kalaš, Vedran Kasalica, Alireza Khanteymoori, Tobias Kuhn, Hailiang Mei, Hervé Ménager, Steffen Möller, Robin A. Richardson, Vincent Robert, Stian Soiland-Reyes, Robert Stevens, Szoke Szaniszlo, Suzan Verberne, Aswin Verhoeven, Katherine Wolstencroft
Date Published: 2021
Publication Type: Journal
Presented at Swedish eResearch Centre meeting, 13 may 2022
Creator: Carole Goble
Submitter: Carole Goble
External LinkKeynote JOBIM 2021 (French Bioinformatics Conference)
FAIR Computational Workflows https://jobim2021.sciencesconf.org/ 8 July 2021
Computational workflows capture precise descriptions of the steps and data dependencies needed to carry out computational data pipelines, analysis and simulations in many areas of Science, including the Life Sciences. The use of computational workflows to manage these multi-step computational processes has accelerated in the past few years driven by the need for ...
Creator: Carole Goble
Submitter: Carole Goble
EOSC-Life FAIR hackathon 2021 Session 3: Workflow & Tools FAIRification
Creators: Carole Goble, Stuart Owen, Simone Leo, Finn Bacall, Stian Soiland-Reyes, Douglas Lowe
Submitter: Carole Goble
So, you want to build a pan-national digital space for bioscience data and methods? That works with a bunch of pre-existing data repositories and processing platforms? So you can share FAIR workflows and move them between services? Package them up with data and other stuff (or just package up data for that matter)? How? WorkflowHub (https://workflowhub.eu) and RO-Crate Research Objects (https://www.researchobject.org/ro-crate) that’s how! A step towards FAIR Digital Objects gets a workout. Keynote ...
Creator: Carole Goble
Submitter: Carole Goble
Keynote presented at WORKS 2021 https://works-workshop.org/
16th Workshop on Workflows in Support of Large-Scale Science November 15, 2021 Held in conjunction with SC21: The International Conference for High Performance Computing, Networking, Storage and Analysis
Creator: Carole Goble
Submitter: Carole Goble
EOSC-Life 3rd Open Call Biohackathon induction workshop
Start Date: 16th Dec 2021
End Date: 16th Dec 2021
Event Website: https://docs.google.com/document/d/1Ks7mf7xVLdnP4vLWj0zcJ2dvOXWtQyAu/edit
Country: Not specified
City: Virtual
Reproducibility is a cornerstone of good scientific practice. Thanks to funding provided by ELIXIR Training Platform Task 2, we have brought together the biggest names in bioinformatics workflow management for a 3 day practical workshop. We have presentations from the development teams of CWL, Snakemake, Nextflow, nf-core and more. If you want to learn more about the workflow management concepts that will be addressed in this workshop, check out these articles:
Workflow systems turn raw data into ...
Start Date: 29th Nov 2021
End Date: 1st Dec 2021
Event Website: https://elixir-workflow-workshop.github.io/2021/
Country: 
Germany
City: Virtual
virtually co-located with the 17th IEEE International Conference on eScience (eScience 2021)
This discussion-focused workshop examines how the FAIR (Findable, Accessible, Interoperable, Reusable) principles are and can be applied to eScience research objects beyond data. Invited speakers will present the idea of FAIR and its application to objects such as software, workflows, machine learning models, and executable notebooks, and where FAIR is going. Invited talks will be followed by a panel ...
Start Date: 20th Sep 2021
End Date: 20th Sep 2021
Event Website: https://researchsoft.github.io/FAIReScience/
Country: Not specified
City: Virtual
The goal of this workshop is to build capacity in SARS-CoV-2 data analysis and data management, including data submission to ENA. After the workshop, all participants will be able to upload viral sequencing data, call all variants, create a variety of reports and create consensus alignments.
It will be a 4-day event introducing scalable and reproducible SARS-CoV-2 data analysis with Galaxy. The sessions will be pre-recorded and provided in advance. During the workshop, there will be live support ...
Start Date: 9th Aug 2021
End Date: 12th Aug 2021
Event Website: https://galaxyproject.eu/event/2021-06-21-sars-cov-2-data-analysis-monitoring-training/
Country: Not specified
City: Virtual
The public and the press already expect to assess the trustworthiness of research relevant to pressing social and public health issues in terms of transparency. While widely recognized as a critical component of research reproducibility in principle, the promise of making research fully transparent—and scientific claims easier to evaluate—via reliable provenance has yet to be realized in full. In particular, it is still far from routine for researchers in the natural, social, and data sciences ...
Start Date: 22nd Jul 2021
End Date: 22nd Jul 2021
Event Website: https://iitdbgroup.github.io/ProvenanceWeek2021/t7.html
Country: 
United States
City: Virtual
The results of the mentimeter for the FAIR workflows section of the EOSC-Life 3rd Open Call projects pre-hackathon induction
Creators: Carole Goble, Stian Soiland-Reyes, Stuart Owen, Finn Bacall, Simone Leo, Douglas Lowe
Submitter: Carole Goble
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