News

CW15 - Keynote speaker announced - Dr Andrew Hudson-Smith of CASA, UCL

We are please to announce that our keynote speaker at Collaborations Workshop 2015 (CW15) wil

Research position in health and research data informatics

  • College of Medicine, Biological Sciences and Psychology Health Sciences
  • Salary Grade 8 - £40,847 to £45,954 per annum
  • Fixed term contract until 31 July 2016

The University of Leicester is ranked in the top 20 universities in Britain. A commitment to high quality fused with an inclusive academic culture led the Times Higher Education to describe the university as "elite without being elitist".

This specialised research position is designed to take forward high-level research projects within the Jisc funded BRISSkit programme of research. Innovative and novel approaches will be devised and implemented with the purpose of furthering understanding in the field and disseminating the results of studies to an international community of scientists.

You will have a PhD and extensive postdoctoral experience in a relevant research area, such as bioinformatics or medical informatics and clear evidence of research productivity, including the publication of at least three first-author papers in international journals Informal enquiries are welcome and should be made to jat26 [at] le [dot] ac [dot] uk (Dr Jonathan Tedds).

For further information and details about this position, read the job summary.

EGI 2015 workshop to explore how to choose an open license for data or code

A special workshop on how to choose the right open licence for code and data will take place at this year's EGI Conference, in Lisbon on Tuesday May 19th at 11.00.

The workshop will address the at times contradictory advice presently available from a range of online sources. This advice will be compared and contrasted with the experiences of developers, who will provide a series of 10 minute presentations on a variety of related subjects.

EGI Workshop on how to choose an open license for data or code

EGI Conference 2015 poster

There are a growing number of web pages offering advice on how to choose an open license for data or code. The advice they give is partly conflicting. As part of the EGI Conference 2015 in Lisbon, on Tuesday 19th May at 11:00, a workshop is being held to bring together the authors of such pages and others with expertise in this area to clarify the choices of license available.

GitHub sponsor Collaboration Workshop 2015 (CW15) and the Hackday

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Free pizza, prizes and research software best practice - Collaborations Workshop 2015 - Registration now open!

The Software Sustainability Institute’s Collaborations Workshop 2015 (CW15) 25-27 March 2015 in Oxford, UK - www.software.ac.uk/cw15 focuses on software, best practice and the social side of working past the

Python for Life Scientists course at TGAC - 20-24 April 2015

The Genome Analysis Centre (TGAC) is organising an intense hands-on training event based on programming in Python for life scientists. Taking place over 20-24 April 2014, the course will start with basic skills in Unix/Linux, the then will explore language concepts and instructions. It will cover the main aspects of OPP, including variables, types, modules, functions, exceptions, control of flux, input, output, and classes.

All the course’s examples and practical sessions will focus on solving the following biological problems:

  • Working with DNA and protein sequences Data retrieval from files and their manipulation
  • Running applications, such as BLAST, locally and from a script
  • Finding motifs in sequences Parsing Swiss-Prot files, PDB files, ENSEMBL records, blast output files, etc
  • Biopython will be also be introduced and applied to some of the above examples.

More details and registration, visit the event website.

Vacancy: Microsoft Research Cambridge is looking for new software engineers

Microsoft Research is to hold an open evening at its Cambridge headquarters as part of its search for new research software engineers.

The event will take place at Microsoft Research Cambridge on Monday February 2nd 2015 from 5.00pm to 7.00pm, and will feature a chance to meet Microsoft researchers and see demonstrations of their current work. Drinks and refreshments will also be provided.

Software engineers will be able to learn more about Microsoft's current opportunities in these fields, which include openings in all of Microsoft Research's development teams. These presently cover Human Experience and Design, Machine Learning and Perception, Programming Principles and Tools, Systems and Networking and Computational Science.

Data Carpentry workshop: using APIs to access life science data on the web

  • Wednesday 11 February, London, 09.00 - 17.00.
  • Delegate fee: £30
  • Organisers: Aleksandra Pawlik, University of Manchester & Data Carpentry
  • More information about the workshop

It has been established that the growing number of well-curated and publicly-available datasets can advance research progress in many domains. However, many researchers still lack the data analysis and management skills to most effectively use these datasets. Data must be accessed from remote repositories and large scale analysesconducted with command line tools or programming languages uch as Python or R. Data Carpentry workshops aim to teach these concepts, particularly to researchers with little computational experience.

The workshop is for anyone interested in learning more about using API's and R for accessing and working with life science data or for anyone interested in learning more about Data Carpentry workshops, to see if they would be useful for the researchers they work with in their communities. In particular, the workshop should be useful for anyone working with research domains supported by ELIXIR UK.

Objectives

  • demonstrate the power of programmatically accessing life science data
  • hands-on learning using API and ROpenSci packages
  • directly experience the Data Carpentry teaching style
  • discuss the applicability of Data Carpentry lessons in participants' own working context
  • hands-on experience on collaborative lesson development (via GitHub)

Want to know how software helps world class research? We've got an app for that!

One of the biggest problems facing researchers is the best way to share their research to as broad an audience as possible. In fact, it’s this important part of research impact, or how academic research makes a contribution to wider society, that is used as one of the yardsticks to judge the success of a research project.

The Software Sustainability Institute has been addressing this problem through its blog, which regularly features articles by researchers from across the disciplines, all of whom have used software to enhance and develop their work. The question, however, was how to make all this fascinating material and the researchers’ output even more accessible.