AreTomo (w)rapper for rln4
Project description
lil_aretomo
im not a (w)rapper
see the script in example directory for the kind of input script you need to run this.
Parameters
----------
tilt_series_file: file containing tilt-series images
tilt_angles: nominal stage tilt-angles from the microscope.
pixel_size: pixel size of the tilt-series in angstroms-per-pixel
output_directory: tilt-series directory for IMOD.
exe: path to the AreTomo executable file
(optional) local_align: carry out local tilt series alignments? Yes or no, default is no
(optional) target_pixel_size: the ideal pixel size at which TSA is carried out. Default is 10A
(optional) nominal_rotation_angle: initial estimate for the rotation angle of the tilt
axis. AreTomo does not need this information but it might help.
(optional) patch_in_x: if local_align is True, AreTomo will carry out patch tracking.
Specify the number of patches in X here. Default is 5.
(optional) patch_in_y: same as above, but in Y. Default is 4.
(optional) correct_tilt_angle_offset: Apply tilt angle offset correction, yes or no.
Default is no. See AreTomo manual for full explanation: yes adds the -TiltCor 1 argument.
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
lil_aretomo-0.0.1.tar.gz
(5.1 kB
view details)
Built Distribution
File details
Details for the file lil_aretomo-0.0.1.tar.gz.
File metadata
- Download URL: lil_aretomo-0.0.1.tar.gz
- Upload date:
- Size: 5.1 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/4.0.0 CPython/3.9.10
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 35ca01d44eb25b9ee022f5fd4a41661fcd9d4eec71f21c7152bbf590669e98bc |
|
| MD5 | 4b1b922bc61aae5bb840bdf939c9750e |
|
| BLAKE2b-256 | 610a5483872e78d7233d67be0e84c131a5ce406d66361d0eb1d270fb967c734e |
File details
Details for the file lil_aretomo-0.0.1-py2.py3-none-any.whl.
File metadata
- Download URL: lil_aretomo-0.0.1-py2.py3-none-any.whl
- Upload date:
- Size: 5.6 kB
- Tags: Python 2, Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/4.0.0 CPython/3.9.10
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 454a414c0b4a6294df1de7f5f6b94c94a944cba16536f1e00dc959d6cca22dfa |
|
| MD5 | 13ca9f1e0fd1938792a65c450ac3bab7 |
|
| BLAKE2b-256 | 273ffa7e05d4bbfa0c11da319631045659a3666b9bc229e716a4fa714f7700fa |
