Difference between revisions of "Integration with Warp and M"
Jump to navigation
Jump to search
AlisterBurt (talk | contribs) |
AlisterBurt (talk | contribs) |
||
| Line 12: | Line 12: | ||
* half-map regularisation by denoising | * half-map regularisation by denoising | ||
| + | = Overview = | ||
| + | * Preprocess from multi-frame micrographs to tilt-series using Warp | ||
| + | * Align tilt-series using [[https://github.com/alisterburt/autoalign_dynamo Dynamo]] | ||
| + | * Generate downscaled tomograms in warp | ||
| + | * Pick particles in Dynamo and run first alignments | ||
| + | * Reextract unbinned particles in warp using [[https://github.com/alisterburt/dynamo2m dynamo2m]] | ||
| + | * Run alignments/classifications in dynamo or relion | ||
| + | * Run multi-particle refinements in M | ||
| − | = | + | The last steps can be repeated to further improve final reconstruction quality |
| + | |||
| + | = preprocess = | ||
| + | |||
| + | = align tilt-series = | ||
| + | |||
| + | = generate downscaled tomograms = | ||
| + | |||
| + | = pick particles in dynamo = | ||
| + | |||
| + | = reextract unbinned particles in warp = | ||
| + | |||
| + | = run alignments/classifications in dynamo or relion = | ||
| + | |||
| + | = run multi-particle refinements in M = | ||
Revision as of 18:17, 7 August 2020
This page describes a method for integration of Dynamo, Warp and M to be able to take advantage of...
Warp's
- streamlined preprocessing
- robust CTF estimation procedures for tilt-series data
Dynamo's
- automated tilt-series alignment
- geometric picking tools
- flexible subtomogram averaging procedures
M's
- multi-particle refinement
- half-map regularisation by denoising
Contents
Overview
- Preprocess from multi-frame micrographs to tilt-series using Warp
- Align tilt-series using [Dynamo]
- Generate downscaled tomograms in warp
- Pick particles in Dynamo and run first alignments
- Reextract unbinned particles in warp using [dynamo2m]
- Run alignments/classifications in dynamo or relion
- Run multi-particle refinements in M
The last steps can be repeated to further improve final reconstruction quality
