Deutsches Elektronen-Synchrotron (DESY)
DESY is one of the world’s leading accelerator centres based in Germany. Researchers use the large-scale facilities at DESY to explore the microcosm in all its variety – from the interactions of tiny elementary particles and the behaviour of new types of nanomaterials to biomolecular processes that are essential to life. The accelerators and detectors that DESY develops and builds are unique research tools. The facilities generate the world’s most intense X-ray light, accelerate particles to record energies and open completely new windows onto the universe. That makes DESY not only a magnet for more than 3000 guest researchers from over 40 countries every year, but also a coveted partner for national and international cooperations. Committed young researchers find an exciting interdisciplinary setting at DESY. The research centre offers specialized training for a large number of professions. DESY cooperates with industry and business to promote new technologies that will benefit society and encourage innovations. This also benefits the metropolitan regions of the two DESY locations, Hamburg and Zeuthen near Berlin.
Deutsches Elektronen-Synchrotron (DESY)
http://www.desy.de/
https://pan-training.eu/content_providers/deutsches-elektronen-synchrotron-desy
DESY is one of the world’s leading accelerator centres based in Germany. Researchers use the large-scale facilities at DESY to explore the microcosm in all its variety – from the interactions of tiny elementary particles and the behaviour of new types of nanomaterials to biomolecular processes that are essential to life. The accelerators and detectors that DESY develops and builds are unique research tools. The facilities generate the world’s most intense X-ray light, accelerate particles to record energies and open completely new windows onto the universe. That makes DESY not only a magnet for more than 3000 guest researchers from over 40 countries every year, but also a coveted partner for national and international cooperations. Committed young researchers find an exciting interdisciplinary setting at DESY. The research centre offers specialized training for a large number of professions. DESY cooperates with industry and business to promote new technologies that will benefit society and encourage innovations. This also benefits the metropolitan regions of the two DESY locations, Hamburg and Zeuthen near Berlin.
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Showing 5 materials.
CrystFEL tutorial
This tutorial covers most of the main steps of using CrystFEL, and is based on processing some freely available LCLS data. The aim of this page is to give an overall idea of how the programs fit together and equip you with the knowledge you need to get started with processing a serial...
Keywords: CrystFEL, data processing, crystallography, structural biology
Resource type: tutorial
CrystFEL tutorial
https://www.desy.de/~twhite/crystfel/tutorial.html
https://pan-training.eu/materials/crystfel-tutorial
This tutorial covers most of the main steps of using CrystFEL, and is based on processing some freely available LCLS data. The aim of this page is to give an overall idea of how the programs fit together and equip you with the knowledge you need to get started with processing a serial crystallography data set on your own.
CrystFEL, data processing, crystallography, structural biology
Photon Community
crystallography
Video introduction to data management plans for PaN users
Video guide illustrating the essential steps of creating a data management plan for an experiment.
Keywords: data management, DMP
Resource type: video
Video introduction to data management plans for PaN users
https://www.youtube.com/watch?v=9wCh2z8e7DI
https://pan-training.eu/materials/video-introduction-to-data-management-plans-for-pan-users
Video guide illustrating the essential steps of creating a data management plan for an experiment.
data management, DMP
PaN users
researchers
Nexus - Nuclear Elastic X-ray scattering Universal Software
Repositroy for the Nexus. The Nuclear Elastic X-ray scattering Universal Software (Nexus) is a Python package for simulating and fitting of Moessbauer spectra, nuclear resonant scattering (NRS) data, pure electronic X-ray reflectivities (XRR), nuclear X-ray reflectivities (nXRR), and polarization...
Scientific topics: nuclear resonant scattering, reflectometry, polarimetry
Keywords: Nuclear Physics, Mossbauer spectroscopy, Nuclear resonant scattering
Resource type: software
Nexus - Nuclear Elastic X-ray scattering Universal Software
https://gitlab.desy.de/fs-mcp/nuclear-nexus
https://pan-training.eu/materials/nexus-nuclear-elastic-x-ray-scattering-universal-software
Repositroy for the Nexus. The Nuclear Elastic X-ray scattering Universal Software (Nexus) is a Python package for simulating and fitting of Moessbauer spectra, nuclear resonant scattering (NRS) data, pure electronic X-ray reflectivities (XRR), nuclear X-ray reflectivities (nXRR), and polarization dependent electronic scattering.
nuclear resonant scattering
reflectometry
polarimetry
Nuclear Physics, Mossbauer spectroscopy, Nuclear resonant scattering
researchers
scientists
Tutorials for Nexus - Nuclear Elastic X-ray scattering Universal Software
Tutorials for the software package Nexus. The Nuclear Elastic X-ray scattering Universal Software (Nexus) is a Python package for simulating and fitting of Moessbauer spectra, nuclear resonant scattering (NRS) data, pure electronic X-ray reflectivities (XRR), nuclear X-ray reflectivities (nXRR),...
Scientific topics: nuclear resonant scattering, resonant scattering
Tutorials for Nexus - Nuclear Elastic X-ray scattering Universal Software
https://fs-mcp.pages.desy.de/nuclear-nexus/tutorial/tutorial.html
https://pan-training.eu/materials/tutorials-for-nexus-nuclear-elastic-x-ray-scattering-universal-software
Tutorials for the software package Nexus. The Nuclear Elastic X-ray scattering Universal Software (Nexus) is a Python package for simulating and fitting of Moessbauer spectra, nuclear resonant scattering (NRS) data, pure electronic X-ray reflectivities (XRR), nuclear X-ray reflectivities (nXRR), and polarization dependent electronic scattering.
nuclear resonant scattering
resonant scattering
Containerized Serial Crystallography “CrystFEL” VISA workflow
Experiments generate up to 150 TB per day of data saved at the measurement facility. Such large datasets are impractical for users to take home.
Subsequent analysis needs to be performed remotely making it attractive for deployment as a cloud-like use case. Involving EOSC in the analysis and...
Scientific topics: crystallography
Keywords: CrystFEL, Serial crystallography, pulsed X-ray beam, VISA
Resource type: workflow
Containerized Serial Crystallography “CrystFEL” VISA workflow
https://pan-training.eu/workflows/containerized-serial-crystallography-visa-workflow
https://pan-training.eu/materials/containerized-serial-crystallography-crystfel-visa-workflow
Experiments generate up to 150 TB per day of data saved at the measurement facility. Such large datasets are impractical for users to take home.
Subsequent analysis needs to be performed remotely making it attractive for deployment as a cloud-like use case. Involving EOSC in the analysis and re-use of this data is an appropriate use case.
Serial crystallography is a beam-line technique for collecting information on the structure of a protein without growing large protein crystals. Instead, a large number of small protein crystals are held in a pulsed X-ray beam. In a second step, the series of produced images are used to reconstruct a precise 3-D image of the protein structure. Serial crystallography is the preferred technique for obtaining diffraction data of proteins at room temperature, where radiation damage from the X-ray beam starts rapidly. The standard software for analysing serial crystallography is “CrystFEL”.
The proposed workflow was rendered in a standard fashion, which would allow it to be easily adopted by arbitrary systems or also other containerized applications. The only requirements are an Apptainer installation on the system and a Docker or Singularity/Apptainer image of the application, as well as an adjustment of the configuration file for the wrapper script.
crystallography
CrystFEL, Serial crystallography, pulsed X-ray beam, VISA
research data scientist
scientific
