Mike Jackson

Better software, better COVID-19 research

By Mike Jackson, EPCC This blog post was originally published on the EPCC blog.

RiboViz: Understanding protein synthesis via analysis of ribosome profiling data

By Mike Jackson, Software Architect and Kostas Kavoussanakis, Group Manager, EPCC, The University of Edinburgh; Edward Wallace, Sir Henry Dale Fellow, School of Biological Sciences, The University of Edinburgh A multi-disciplinary team of biologists, bioinformaticians and research software engineers based at EPCC and The Wallace Lab at University of Edinburgh, The Shah Lab at Rutgers University and The Lareau Lab at University of California, Berkeley will enhance and extend a software suite, called RiboViz to extract biological insight from "ribosome profiling" data and drive forward…

Checklist for a Software Management Plan 1.0 released

By Mike Jackson, Research Software Engineer. When developing research software, we need to know what we are going to write, who it is for (even if this is just us), how we will get it to them, how it will help them, and how we will evaluate whether it has helped them. A Software Management Plan (SMP) can help us think about these and decide upon the processes we will use when developing our software. To help write SMPs, we have now published version 1.0 of our Checklist for a Software Management Plan.

PickCells and exploratory image analysis in cell biology

By Mike Jackson, Software Architect, The Software Sustainability Institute. PickCells is an image analysis platform developed by the Centre for Regenerative Medicine (CRM) at The University of Edinburgh.

Software Deposit Guidance for Researchers

By Mike Jackson, Software Architect. The Software Sustainability Institute has published a set of guides about depositing research software into digital repositories. These guides cover the main aspects of software deposit.

Software Deposit and Preservation Workshop

By Mike Jackson, Software Architect. On the 11th July, the Software Sustainability Institute and Jisc ran a Software Deposit and Preservation Workshop at St. Anne’s College, Oxford. This workshop brought together 12 research data managers, digital repository vendors, publishers, policymakers and researchers.

Software Deposit and Preservation Workshop

On the 11th of July, The Software Sustainability Institute and Jisc will be running a Software Deposit and Preservation Workshop in Oxford. At this workshop, research data managers, digital repository vendors, publishers, policymakers and researchers will present their perspectives on software deposit and preservation. Speakers include Naomi Penfold (eLife), Roberto Di Cosmo (Software Heritage), Federica Fina (University of St. Andrews) and Antonis Lempesis (Athena Research and Innovation Centre/OpenAIRE).

Software Deposit and Preservation Workshop

On the 11th of July, The Software Sustainability Institute and Jisc will be running a Software Deposit and Preservation Workshop in Oxford. At this workshop, we will bring together research data managers, digital repository vendors, publishers, policymakers and researchers. We will present guidance on software deposit and preservation, discuss software deposit and preservation from the perspectives of the foregoing stakeholders, and identify ways in which to drive forward the adoption of best practices in software deposit and preservation.

Software Deposit and Preservation Policy and Planning Workshop Report

By Mike Jackson, Software Architect, The Software Sustainability Institute On the 7th March, Jisc and the Software Sustainability Institute ran a Software Deposit and Preservation Policy and Planning Workshop at Jisc’s Brettenham House in London. This was part of an activity, funded by Jisc, to provide software deposit and preservation guidance, in particular to develop use cases and workflows for software deposit via Jisc's Research Data Shared Service (RDSS). A draft report on the workshop is now available.

Sharing reproducible research – minimum requirements and desirable features

By M. H. Beals, Catherine Jones, Geraint Palmer, Mike Jackson, Henry Wilde, John Hammersley, Daniel Grose, Robin Long, Adrian-Tudor Panescu, Kirstie Whitaker

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