Computing workflow
Under construction
Data processing computing resources on site
Under construction
Available reconstructions programs
Under construction
Available additional programs
Under construction
Remote acces to LINUX workstations
Remote acceess to the Linux worstations that enables data processing requires a Leiden University login account. once this is granted the details on how this can be done can be obtained from the Wiki.
Most frequently used LINUX commands
Under construction
On-site network and Wiki
Under construction
Data pre-processing
Provides the user with optimized data ready for image processing.
- A posteriori camera correction (as from Afanasyev et al., 2015, Scientific Reports)
- Movie alignment (Using Drift Corr script from Li et al., 2013, Nat Methods)
- Magnification correction (Grant and Grigorieff, 2015, JSB)
- CTF estimation (CTFFIND 4, Rohou and Grigorieff, 2015, JSB)
- Overall data quality assessment
Data processing and analysis
Data processing will be done within a Scipion project environment.
- Automatic particle picking
- 2D classification
- Initial model generation
- 3D classification
- 3D refinement
These are just to provide a general overview of the data, and does not provide a final structure as it it will be done as a first pass.