Support for science

Developing an outbreak analysis platform

Author: Lucy Norris
Posted: 27 Jul 2021 | 11:49

EPCC is working with ISARIC4C, the Coronavirus Clinical Characterisation Consortium, to develop an integrated analysis platform that will be hosted in part on the Edinburgh International Data Facility.

The data analysis platform provides a unique combination of linked, curated data from UK sovereign data assets, together with a flexible high performance compute space. Created for COVID-19 research, the ISARIC4C data analysis platform combines the data safeguards of an NHS trusted research environment, with more than £100M of new exabyte-scale computational capacity at the home of the UK national supercomputer. This creates a unique opportunity to combine clinical, biological, genomics and virology research in a secure, openly-accessible framework.

CompBioMed: creating virtual humans

Author: Gavin Pringle
Posted: 22 Jul 2021 | 14:09

EPCC is a Core Partner of CompBioMed, a European Centre of Excellence focused on the use and development of computational methods for biomedical applications. We prepare these applications for future exascale systems, to create the first virtual humans: digital twins to enable personalised medicine.

Data-driven innovation at EPCC

Author: Tracy Peet
Posted: 21 Jun 2021 | 10:59

Some highlights from our current work in this area.

Performance optimisation and application scaling activities at EPCC

Author: Tracy Peet
Posted: 21 Jun 2021 | 10:32

EPCC has a history of working with some of the most powerful supercomputers in the world. As such, we have decades of experience optimising and fine-tuning applications for the best performance. One of our key areas of research is HPC software optimisation to achieve maximum efficiency with the aim of delivering scientific results quickly and accurately. Here are some highlights from our current work in this area.

A researcher's perspective on working with the Software Sustainability Institute

Author: Guest blogger
Posted: 11 Dec 2020 | 08:50

By Edward Wallace, School of Biological Sciences, University of Edinburgh.

Why I need sustainable software for my research

I run a lab, or research group, in the School of Biological Sciences at Edinburgh. My group  is funded by the Wellcome Trust, the Royal Society and BBSRC. We're interested in questions about how cells decide which proteins to make and when. Also, how cells change which proteins they make when they learn something from the environment and need to change what they're doing. In the 21st century we collect some very large datasets to measure this. There are datasets based on sequencing the RNA, which encodes protein, and datasets that measure all the proteins in cells at the same time. These datasets are measuring thousands of different things in many samples, often dozens of samples. Each dataset is gigabytes in size, and so it's quite hard work to dig into them and get the simplest and most relevant answers about what cells are doing.

Extreme-scale precision imaging in radio astronomy

Author: Adrian Jackson
Posted: 2 Dec 2020 | 10:00

EPCC has embarked on a new collaboration with Prof. Yves Wiaux (Heriot-Watt University) to advance algorithms for high-precision and high-sensitivity computational imaging. 

The EIRA (Extreme-Scale Precision Imaging in Radio Astronomy) collaboration will focus on radio astronomy, which uses radio telescopes to collect data. This allows observation of the sky with antennae arrays at otherwise inaccessible angular resolutions and sensitivities. Algorithms being developed at Heriot-Watt University will address the challenges of building images from these incomplete linear data sets.

HPC-Europa3 Transnational Access Meeting (TAM2020)

Author: Catherine Inglis
Posted: 5 Nov 2020 | 11:25

The HPC-Europa3 Transnational Access programme funds short collaborative research visits for computational scientists working in any discipline which can use HPC.

Former HPC-Europa visitors are invited to attend the Transnational Access Meeting (TAM), to present the results of their visits. With approximately 40% of visitors being postgraduates, for many it also provides a supportive environment for their first conference presentation.

ePython: can we have our cake and eat it?

Author: Guest blogger
Posted: 17 Aug 2020 | 15:02

Maurice Jamieson is a third-year PhD student at the EPCC working on the programmability of micro-core architectures, both in terms of design and implementation, through the development of the ePython programming language.

We recently published a paper at the Scientific Computing with Python (SciPy) 2020 conference that outlined the latest developments to ePython, a version of Python specifically written to leverage micro-core architectures. The paper provides a detailed discussion of the design and implementation of ePython, touching on the latest updates to manage arbitrary large data sets and native code generation. This post will summarise key elements of the paper.

Edinburgh International Data Facility Summer 2020 update

Author: Rob Baxter
Posted: 30 Jul 2020 | 11:44

Despite the challenges of COVID-19, work is proceeding on the development of the Edinburgh International Data Facility (EIDF) and the advanced computing facility that will host it.

The EIDF is the underpinning data infrastructure of the activities of the Edinburgh and South-East Scotland Data Driven Innovation (DDI) Programme. It supports data and computing activities across all areas of the Programme and was, until February 2020, known by its original name of World Class Data Infrastructure (WCDI).

Supporting the national response to COVID-19

Author: Rob Baxter
Posted: 29 Jul 2020 | 15:42

EPCC and the Edinburgh International Data Facility (EIDF) have been working with the NHS and Public Health Scotland to create a secure data and computing environment for urgent research in Scotland into COVID-19. 

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