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pipeline:sort3d:sxsort3d [2018/02/23 18:15] moriya |
pipeline:sort3d:sxsort3d [2019/04/02 10:49] lusnig |
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- | ===== sxsort3d | + | ===== sp_sort3d |
3D Clustering - SORT3D: Sort 3D heterogeneity based on the reproducible members of K-means and Equal K-means classification. It runs after 3D refinement where the alignment parameters are determined. | 3D Clustering - SORT3D: Sort 3D heterogeneity based on the reproducible members of K-means and Equal K-means classification. It runs after 3D refinement where the alignment parameters are determined. | ||
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Usage in command line | Usage in command line | ||
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===== Typical usage ===== | ===== Typical usage ===== | ||
- | sxsort3d | + | sp_sort3d |
- | mpirun -np 192 sxsort3d.py bdb:data sort3d_outdir1 mask.hdf --focus=ribosome_focus.hdf --chunkdir=/ | + | mpirun -np 192 sp_sort3d.py bdb:data sort3d_outdir1 mask.hdf --focus=ribosome_focus.hdf --chunkdir=/ |
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===== Description ===== | ===== Description ===== | ||
- | The clustering algorithm in the program combines a couple of computational techniques, equal-Kmeans clustering, K-means clustering, and reproducibility of clustering such that it not only has a strong ability but also a high efficiency to sort out heterogeneity of cryo-EM images. The command | + | The clustering algorithm in the program combines a couple of computational techniques, equal-Kmeans clustering, K-means clustering, and reproducibility of clustering such that it not only has a strong ability but also a high efficiency to sort out heterogeneity of cryo-EM images. The command |
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==== Files ==== | ==== Files ==== | ||
- | sparx/bin/sxsort3d.py | + | sparx/bin/sp_sort3d.py |
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==== See also ==== | ==== See also ==== | ||
- | [[pipeline: | + | [[pipeline: |
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