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gpu_isac [2020/08/03 13:46]
fschoenfeld 		gpu_isac [2020/08/03 15:20]
fschoenfeld
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 ===== Overview ===== ===== Overview =====
  
-Bleuep!+**ISAC** (Iterative Stable Alignment and Clustering) is a 2D classification algorithm to sort cryo-EM particles into classes depicting the same view of a target protein. It is based around iterations of alternating equal size k-means clustering and repeated 2D alignment routines. 
  
-  * .. +**ISAC2** is an improved version of ISAC, and the default tool to produce 2D class averages in the **[[http://sphire.mpg.de/wiki/doku.php?id=downloads:sphire_1_3|SPHIRE]]** ([[https://github.com/cryoem/eman2|git]]) software package and the **[[https://github.com/MPI-Dortmund/transphire|TranSPHIRE]]** automated pipeline for processing cryo-EM data. ISAC2 is a CPU-only implementation that is usually run on a computer cluster.
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-**ISAC** (Iterative Stable Alignment and Clustering) is a 2D classification algorithm to sort cryo-EM particles into classes depicting the same view of a target protein. It is based around iterations of  +**GPU ISAC** is designed to run ISAC2 on a single workstation by outsourcing its computationally expensive calculations to any available GPUs.
-alternating equal size k-means clustering and repeated 2D alignment routines. +
  
 <note> <note>
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 ''Yang, Z., Fang, J., Chittuluru, J., Asturias, F. J. and Penczek, P. A. (2012) Iterative stable alignment and clustering of 2D transmission electron microscope images. Structure 20, 237–247.'' ''Yang, Z., Fang, J., Chittuluru, J., Asturias, F. J. and Penczek, P. A. (2012) Iterative stable alignment and clustering of 2D transmission electron microscope images. Structure 20, 237–247.''
 </note> </note>
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-**ISAC2** is an improved version of ISAC, and the default tool to produce 2D class averages in the **[[http://sphire.mpg.de/wiki/doku.php?id=downloads:sphire_1_3|SPHIRE]]** ([[https://github.com/cryoem/eman2|git]]) software package and the **[[https://github.com/MPI-Dortmund/transphire|TranSPHIRE]]** automated pipeline for processing cryo-EM data. ISAC2 is a CPU-only implementation that is usually run on a computer cluster. 
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-**GPU ISAC** is designed to run ISAC2 on a single workstation by outsourcing its computationally expensive calculations to any available GPUs. 
  
 <note important> <note important>
-**Chimera Beta:** If you are using the previously distributed GPU ISAC "Chimera" Beta version, we recommend switching to the current version. The documentation for the "Chimera" beta can still be found **[[https://sphire.mpg.de/wiki/doku.php?id=gpu_isac_chimera|here]]**, however. +**Chimera Beta:** The previously distributed GPU ISAC "Chimera" Beta version is no longer supported and we recommend using the current version of GPU ISAC. You can still find the "Chimera" documentation [[https://sphire.mpg.de/wiki/doku.php?id=gpu_isac_chimera|here]], however.
- +
-The currently available version of GPU ISAC is a beta version. A significantly improved and significantly faster version is being tested right now and will be released shortly.+
 </note> </note>
  
gpu_isac.txt · Last modified: 2021/05/08 00:41 by shaikh

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