Scientists nowadays collect ever larger amounts of data that have to be stored, interpreted and shared.
Furthermore, new guidelines and policies regarding data management are regularly issued by funding agencies, journals or academic institutions. As a result, successful research data management has become both a key skill and a major challenge for many scientists.
In collaboration with ETH Library, we participate in a workshop series of eight consecutive workshops focusing on the various elements of research data management and the research data life cycle.
The first workshop on Research Data Management Basics will start on September 28, 2022. Subsequent workshops will run throughout October and November.
Further information and registration is available here.
Professional research data management (RDM) is a key factor for excellent research and an integral component of good scientific practice. In recent months, the Open Science working group of ETH Zurich – with the active involvement of the ETH research community – has drafted guidelines for RDM at ETH Zurich and systematically linked them with the Integrity Guidelines. The working group is drawn from different ETH divisions, among them the Research Commission, ETH Library and SIS. The new guidelines for research data management have been approved by the ETH Executive Board in June and came into effect on July 1. SIS supports researchers in the implementation of the new guidelines by offering different RDM services and a secure data and IT platform for management and processing of confidential and strictly confidential Research Data (Leonhard Med).
SIS was involved teaching data management and reproducible data analysis. We also contributed several workshops:
- Introduction to research data managemeng using openBIS
- Tools and platforms for reproducible data analysis
- Version control using git
- Secure Handling of Strictly Confidential and Confidential Data for Research
ITS SIS is organizing a conference track at the Applied Machine Learning Days 2022 (AMLD 2022) on the topic Academic Support & Scientific Services in AI.
The purpose of this track is to bring together domain scientists and AI experts who work collaboratively. These scientists and experts will share their experiences on the benefits and challenges of such "AI collaborations".
We have speakers from SDSC, Google, ScopeM, TCC/UniZH, etc. You can find a detailed description of our track, including speakers and agenda of the track, here At the end of the track, there will be a panel discussion for further exchange. We are looking forward to a diverse and stimulating session.
AMLD 2022 will take place from March 28-30, 2022, in Lausanne. Our track will be held on the 30th of March from 11:00-17:00. If you have time and interest in this topic, we would be delighted to see you at our track.
The latest version of the AI-based AlphaFold has been recognized as a solution to the 50-year-old grand challenge in predicting the protein 3D folding structure by its amino acid sequence. To facilitate the use of AlphaFold2 for the ETH research community, Scientific IT Services (SIS) provide its Python package and databases required for running AlphaFold2 on the HPC Euler cluster. In this online event, we would like to present you the usage of AlphaFold2 on Euler and examples of applications.
Date: Monday 21 March 2022 at 10:00-11:00
Zoom link: https://ethz.zoom.us/j/64638964004
- Short introduction of the scientific breakthrough of the year 2021 - AlphaFold2 (presenter: Dr. Marc Leibundgut, D-BIOL, IMBB)
- Using AlphaFold2 and its databases on the Euler cluster (presenter: Dr. Jarunan Panyasantisuk, SIS)
- Applications and interpretation of the results (presenter: Dr. Simon Rüdisser, D-BIOL, BioNMR)
- Open discussion
We are looking forward to seeing you at the event.
For questions, please contact firstname.lastname@example.org.
The BioMedIT project was launched in 2017 as part of the SPHN initiative, linking secure computing infrastructures in Basel, Lausanne and Zurich. At the moment, the project provides essential IT and data management services to over 60 national and international projects. Furthermore, to highlight this success, the project launched its website today.
The overall goal of personalized health research is to optimize disease diagnostics, prevention, and treatment based on patient characteristics (molecular, clinical and phenotypic). However, this is possible only if a critical mass of datasets, typically scattered across several healthcare institutions, can be analyzed efficiently and consistently.
BioMedIT makes it easier to reach this critical mass by offering an easy and secure way to conduct large multi-site projects. It builds on and integrates results from parallel initiatives around data interoperability at the national level.
For more details of BioMedIT, including success stories and organizational structure, please refer to the news item (English, German and French (links)). For more information about BioMedIT activities in ETH Zurich, please get in touch with the Leonhard Med team.
The ETH-Board together with the six ETH-Domain institutions have allocated up to CHF 10 million till the end of 2024 as a measure to launch an open research data (ORD) practices funding scheme. ORD includes code, computing environments, tools/hardware, wetware, educational resources and generally any information that is necessary to do research. The programme’s overall goal is to promote ORD practices and infrastructures across the ETH-Domain and stimulate a wider implementation of good ORD practices.
The scheme consists of three tracks for funding projects to contribute to ongoing, explore new, and establish standards/processes of ORD practices; these three distinct project types are described on the website of the ETH Domain. Please note that specific budgeting requirements, funding and regulations for in-kind or in-cash contributions apply for ETH Zurich applicants (see call details).
Open calls for Field-Specific Actions (Measure 1):
The first call for “Explore” projects (deadline set for 14 April 2022) and the call for “Establish” preproposals (deadline 1 May 2022) have been closed. The next call for “Contribute” projects will be advertised on the Website of the ETH-Board soon.
We offer the Code and Data Clinic
first Tuesday of every month in the first half of 2022
4 Jan, 1 Feb, 1 Mar, 5 Apr, 3 May, 7 Jun,
14:00-16:00 either over Zoom or in the Science Lounge
Please announce your attendance with a short email to email@example.com.
We are pleased to announce a three-day course to give a hands-on introduction to write fast(er) code in Python.
Because of the COVID-19 safety regulations at ETH Zurich this course edition is being held entirely online on Zoom at the following days and times:
- Tuesday 23rd of November, 9:15 until 16:30
- Thursday 25th of November, 9:15 until 16:30
- Tuesday 30th of November, 9:15 until 16:30
The course requires some previous Python experience and will be suited for you if you can answer the following quesions with "yes":
- Do you program in Python for more than a year?
- Have you ever experienced performance issues in your Python code?
- Are you interested in how to run Python code on the Euler high-performance-cluster of ETH?
The course will give you an introduction into different techniques and tools which help you to tackle performance issues when writing Python code either on your local computer and/or on a high-performance computing cluster.
This course is not an introduction to Python and does not offer a deep-dive into the presented topics. Instead, we try to raise awareness of existing solutions and to teach best-practices so that participants can acquire the basic skills needed to tackle performance related programming problems on their own.
For more information about the course and how to apply read here.
We would like to invite you to our short lecture on scientific computing with computational notebooks taking place on
17 November 2021 at 15:15-15:30
Please find the Zoom link to join the lecture and more information here.
We would like to invite you to join our online workshop on Getting Started with the Scientific Cluster taking place on
Thursday 14 October 2021, 10:00-15:00.
For more information and registration, click here
The next Code and Data Clinic for DBIOL and DGESS will happen via Zoom on Friday 1st of October, 3 to 5 pm.
Please write a short email to firstname.lastname@example.org to announce your attendance and to get the zoom link.
We are pleased to offer a four-day hands-on workshop on Introduction to Machine Learning using Python.
The course will take place on Tue 28th, Wed 29th September and Tue 5th, Wed 6th October 2021 via zoom.
For more information about the course and how to apply read here.
We are pleased to announce the openBIS User Group Meeting 2021. The event will take place online from 27th to 30th September 2021.
The first day there will be a few talks from users and a round table of discussion. The following days we will offer several workshops on different topics.
The first day is open to anyone, but registration is mandatory. The workshops have limited places available.
For more info and registrations check the event website.
We are pleased to announce a four-day course in Parallel Programming with MPI/OpenMP being held on
August 23 - 26, 2021.
For more details read here.
We offer the openBIS ELN and LIMS Training over Zoom. The training has two parts:
- openBIS & ETH RDH Training on 20 January 2021, 9:00 - 12:30
- Analyzing data stored in openBIS with Jupyter and Matlab on 21 January 2021, 9:00 - 10:30
For more information and registration, click here
The openBIS team is proud to officially introduce openBIS 20.10.0 RC (Release Candidate). This release has a focus not only on introducing new features, but also on refining existing components.
- Fast and scalable query engine
- Preview of new admin interface with mobile-friendly components
- The newly added "Sample Properties" enables easily data modelling with cycles
We would like to invite you to a webinar where we will introduce the major new features of this latest openBIS release. You will also have the chance to talk and ask questions to our openBIS developers. The webinar will take place on Thursday 12.11.2020 at 14:00-15:30.
A video recording of the webinar is available here.
We offer a two day course introducing Python to members of C2SM.
The course introduces the Python programming language to students and researchers having basic programming skill in another programming language already.
This course is suited for you if:
- you did some programming in the past (maybe R, Matlab, C, Java, ...)
- you know concepts of "function", "if then else", "while" and "for".
- you do not have Python experience yet.
The course will be to fast if you never programmed before.
The course will be given on 1st and 2nd of October 2020, 9:00-13:00 via zoom.
In case of further questions please contact email@example.com.
Did you miss the Leonhard Med Info-Event or would you like to see it again? Take a look at the video recording! Read more here.
The Scientific IT Services of ETH Zurich and LOOP offer an info event for principal investigators and other potential applicants who are preparing research proposals for the current LOOP call.
- Date: September 2, 2020
- Time: 16:00 - 16:45
- Location: ZOOM Webinar https://ethz.zoom.us/s/99771588128
Contact: Diana Coman Schmid, firstname.lastname@example.org