Automatic particle picking using diffusion filtering and random forest classification
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An automatic particle picking algorithm for processing electron micrographs of a large molecular complex, the 26S proteasome, is described. The algorithm makes use of a coherence enhancing diffusion filter to denoise the data, and a random forest classifier for removing false positives. It does not make use of a 3D reference model, but uses a training set of manually picked particles instead. False positive and false negative rates of around 25% to 30% are achieved on a testing set. The algorithm was developed for a specific particle, but contains steps that should be useful for developing automatic picking algorithms for other particles.
| Author(s): | Joubert, P. and Nickell, S. and Beck, F. and Habeck, M. and Hirsch, M. and Schölkopf, B. |
| Links: | |
| Pages: | 6 |
| Year: | 2011 |
| Month: | September |
| Day: | 0 |
| Bibtex Type: | Conference Paper (inproceedings) |
| Event Name: | International Workshop on Microscopic Image Analysis with Application in Biology (MIAAB 2011) |
| Event Place: | Heidelberg, Germany |
| Digital: | 0 |
| Electronic Archiving: | grant_archive |
BibTex
@inproceedings{JoubertNBHHS2011,
title = {Automatic particle picking using diffusion filtering and random forest classification},
abstract = {An automatic particle picking algorithm for processing
electron micrographs of a large molecular complex, the
26S proteasome, is described. The algorithm makes use of a
coherence enhancing diffusion filter to denoise the data, and a random forest classifier for removing false positives. It does not make use of a 3D reference model, but uses a training set of manually picked particles instead. False positive and false negative rates of around 25% to 30% are achieved on a testing set. The algorithm was developed for a specific particle, but contains steps that should be useful for developing automatic picking algorithms for other particles.},
pages = {6},
month = sep,
year = {2011},
slug = {joubertnbhhs2011},
author = {Joubert, P. and Nickell, S. and Beck, F. and Habeck, M. and Hirsch, M. and Sch{\"o}lkopf, B.},
month_numeric = {9}
}