Particle Stack
usage: particle_stack [-h] [--image-root IMAGE_ROOT] [-o OUTPUT] [--size SIZE]
[--threshold THRESHOLD] [--resize RESIZE]
[--image-ext IMAGE_EXT] [--metadata METADATA]
file
Positional Arguments
- file
path to input coordinates file
Named Arguments
- --image-root
root directory of the micrograph files
- -o, --output
path to write particle stack file
- --size
size of particle stack images
- --threshold
only take particles with scores >= this value (default: -inf)
Default: -inf
- --resize
rescaled particle stack size. downsamples particle images from size to resize pixels. (default: off)
Default: -1
- --image-ext
image file extension (default=.mrc)
Default: “.mrc”
- --metadata
path to .star file containing per-micrograph metadata, e.g. CTF parameters (optional)