Page Index - cianfrocco-lab/Old-school-processing GitHub Wiki
50 page(s) in this GitHub Wiki:
- Home
- Workflows
- Information for IT administrators
- 2D classification
- 3D classification & refinement
- 3D reconstruction of individual 2D class averages for RCT OTR
- Analysis
- Auto Align (Neural network)
- Best practices in processing EM data
- Boxer manual picking
- Code repository vs. Wiki vs. Issues
- Continuing Relion job
- Converting between file types
- Creating a new user account
- e2boxer.py manual picking
- Estimating the CTF
- Extracting particles outside of Relion
- Extracting particles using Relion
- Filtering, thresholding, masking 3D models
- Getting started
- Introduction to GitHub & wiki
- Issue Question Discussion tracking via Issues
- IT Administrators
- Making a particle stack
- Manipulating images
- Manual particle picking
- Manual tilt pair particle picking
- Manual vs. automatic particle picking
- Model bias
- Negative stain EM workflow
- Opening particle stacks and images
- Particle normalization
- Particle picking guidelines
- Particle stacks vs. single images
- Picking a box size & pixel size for particle processing
- Python programs & the command line interface
- RCT OTR overall workflow
- Relion 2D classification (Maximum likelihood)
- Relion 3D classification
- Relion 3D refinement
- Relion post processing
- Removing junk from your data
- Searching this wiki for help
- Semi automated tilt pair particle picking
- Signature
- Spider 3D refinement
- SWARM in e2boxer.py
- Theoretical foundations for electron microscopy & image processing
- Using Relion for data processing
- What is GitHub?