pipeline:utilities:start

This version (2019/04/02 12:49) is a draft.
Approvals: 0/1
Batch Pipeline Execution
Run jobs that wait with the execution on each other
Display Data
Displays images, volumes, or 1D plots.
PDB File Conversion
Converts an PDB atomic model into a simulated density map.
RELION to SPHIRE Conversion
Convert parameters from RELION to SPHIRE formats.
SPHIRE to RELION Conversion
Convert parameters from SPHIRE to RELION formats.
Separate Into Classes
Separates stacks of particle images into stacks for each class.
Compare re-projections
Compare re-projections to class averages
Volume Adjustment
Resamples, clips, and removes disconnected regions from a 3D map. It optionally creates a mask from the resulting volume.
Masking
Mask creation tool for 2D or 3D masks
Change Size of Image or Volume
Change size of image or map
Window Volume
Window (pad or clip) volume to the specificy dimension
Angular Distribution
Creates a .bild file to display the particle orientation distribution in Chimera.
crYOLO - boxmanager
Displays boxfiles on images. Allows creation of new training data for crYOLO
Balance Angular Distribution
Balance angular distribution of projection directions by removing excess particles
PostRefiner (Single Volumes)
Enhancing the power spectrum of any single volumes (Single Volumes Mode).
Micrograph Movie Summation
Create an average micrograph using Summovie http://grigoriefflab.janelia.org/unblur.
Header Operations
Perform operations on headers of hdf or bdb image file.
Create Virtual Stack
Make a virtual BDB image stack.
Organize Micrographs/Movies
Move selected micrographs/movies from source to destination directory.
CTF refine (Meridien)
Refine the defocus per particle
CTF refine (Stack)
Refine, manual, the defocus per particle
  • pipeline/utilities/start.txt
  • Last modified: 2019/04/02 12:49
  • by lusnig