https://github.com/princetonuniversity/cwf_denoise
Covariance Estimation and Denoising for Cryo-EM Images (Covariance Wiener Filtering)
https://github.com/princetonuniversity/cwf_denoise
covariance-matrix cryo-em denoising denoising-images
Last synced: 7 months ago
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Covariance Estimation and Denoising for Cryo-EM Images (Covariance Wiener Filtering)
- Host: GitHub
- URL: https://github.com/princetonuniversity/cwf_denoise
- Owner: PrincetonUniversity
- Created: 2016-04-08T14:03:01.000Z (over 9 years ago)
- Default Branch: master
- Last Pushed: 2017-08-08T02:27:32.000Z (about 8 years ago)
- Last Synced: 2025-01-21T09:30:35.281Z (9 months ago)
- Topics: covariance-matrix, cryo-em, denoising, denoising-images
- Language: Matlab
- Homepage:
- Size: 1.64 MB
- Stars: 14
- Watchers: 4
- Forks: 6
- Open Issues: 0
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Metadata Files:
- Readme: readme.txt
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README
This is a MATLAB package for denoising CTF -affected cryo-EM images based on the following manuscripts:
1) Denoising and Covariance Estimation of Single Particle Cryo-EM Images
Tejal Bhamre, Teng Zhang, Amit Singer
http://arxiv.org/abs/1602.06632
2) Fast Steerable Principal Component Analysis
Zhizhen Zhao, Yoel Shkolnisky, Amit Singer
http://arxiv.org/abs/1412.0781
The folder kn_rankest includes code for rank estimation by S. Kritchman and B. Nadler.
DEPENDENCIES
----------------
This package should be used in conjunction with the cryo-EM tool box ASPIRE (http://spr.math.princeton.edu/) and will be included in the latest version of ASPIRE. It also requires the NUFFT package (to be included in the latest version of ASPIRE) available
at http://www.cims.nyu.edu/cmcl/nufft/nufft.html.
INSTRUCTIONS
----------------
1) Download and install ASPIRE from http://spr.math.princeton.edu/ following the instructions for installation.
2) Add ASPIRE files in your MATLAB path using initpath.m in ASPIRE.
3) If this package is in a separate location than ASPIRE, add the package to your MATLAB path using cwf_paths.m
4) Enjoy the example simulation scripts in cwf_scripts to denoise images.
In case of issues or questions, please email Tejal (tbhamre@math.princeton.edu) and Jane (jzhao@cims.nyu.edu).