Difference between revisions of "EMBO workshop 2018"
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* Basic [[Starters guide | walkthrough]]: creating a catalogue, picking particles, launching a project. | * Basic [[Starters guide | walkthrough]]: creating a catalogue, picking particles, launching a project. | ||
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===Wednesday September 5th=== | ===Wednesday September 5th=== | ||
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*VLP project (link) | *VLP project (link) | ||
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| + | ==Instructors== | ||
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| + | *Dustin Morado, MRC-LMB, Cambridge, UK. | ||
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| + | *Paula Navarro, C-CINA, University of Basel, Switzerland. | ||
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| + | * Giulia Zanetti, Birkbeck College, London, UK. | ||
Revision as of 10:16, 3 September 2018
Dynamo will be used for the subtomogram averaging part of the EMBO course on Image Processing for CryoEM data.
Contents
Computers
Data sets
In the directory XXX there are folders with real data sets. Data sets:
- Tomogram 1 is called crop.rec. The data is a fraction of a tomogram. The full tomogram was used in "Cryo-electron tomography reveals novel features of a viral RNA replication compartment." (Ertel et al.), and represents several FHV viruses docked in the outer membrane of a mitochondrion. Data can be downloaded here
- Tomogram 2 is called t20s.mrc. The tomogram visualises purified T20S proteasome in solution. Data can be downloaded here
Program
Tuesday September 4th
General Introduction
Guided presentation:
- Basic Dynamo jargon
- tutorial on basic elements: help, data and metadata formats.
- tutorial on the basic concept in Dynamo alignment: the project.
after the coffee break
Working on your own
- Basic walkthrough: creating a catalogue, picking particles, launching a project.
Wednesday September 5th
Introduction
Guided presentation:
- Basic Dynamo jargon
- Walkthrough on template matching
- Overview discussion of Advanced starters guide
after the coffee break
Working on your own
- Walkthrough for Advanced starters guide
Thursday September 6th:
Introduction
Guided presentation
- Overview discussion with XXX computing modi, with focus on GPUs (EMBO GPUs link).
- Walkthrough for lattices on vesicles extraction of particles from densely packed spherical geometry.
- Overview discussion of VLP project.
Working own your own:
- VLP project (link)
Instructors
- Dustin Morado, MRC-LMB, Cambridge, UK.
- Paula Navarro, C-CINA, University of Basel, Switzerland.
- Giulia Zanetti, Birkbeck College, London, UK.
