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sphire_1_4 [2021/02/15 14:34]
fschoenfeld 		sphire_1_4 [2021/02/15 15:02]
twagner
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     * multiple improvements for better results.     * multiple improvements for better results.
  
-==== Documentation & Tutorial ====+===== Documentation & Tutorial =====
  
   * Find the [[http://sphire.mpg.de/wiki/doku.php|SPHIRE documentation]] here.   * Find the [[http://sphire.mpg.de/wiki/doku.php|SPHIRE documentation]] here.
   * Find the [[ftp://ftp.gwdg.de/pub/misc/sphire/sphire_1_3_tutorial/sphire_1_3.pdf|SPHIRE tutorial (direct link to .pdf file)]] here. (The SPHIRE tutorial is a step-by-step walkthrough of processing a data set from beginning to end, including pre-processed data milestones.)   * Find the [[ftp://ftp.gwdg.de/pub/misc/sphire/sphire_1_3_tutorial/sphire_1_3.pdf|SPHIRE tutorial (direct link to .pdf file)]] here. (The SPHIRE tutorial is a step-by-step walkthrough of processing a data set from beginning to end, including pre-processed data milestones.)
  
-==== Download ==== +===== Download =====
-The installer uses Anaconda, which should install independently of the choice of Linux distribution.  The Mac installer is experimental.+
  
-Here are the downloads for Mac and Linux:+The SPHIRE installer uses Anaconda, which installs independently of your choice of Linux distribution.
  
   * [[https://cryoem.bcm.edu/cryoem/static/software/release-2.9/eman2.9_sphire1.4_sparx.linux64.sh| Linux installer]]   * [[https://cryoem.bcm.edu/cryoem/static/software/release-2.9/eman2.9_sphire1.4_sparx.linux64.sh| Linux installer]]
-  * [[https://cryoem.bcm.edu/cryoem/static/software/release-2.9/eman2.9_sphire1.4_sparx.MacOS.sh| Mac installer (Expermential)]]+  * [[https://cryoem.bcm.edu/cryoem/static/software/release-2.9/eman2.9_sphire1.4_sparx.MacOS.sh| Mac installer (experimental)]] 
 + 
 +Find our additional SPHIRE tools here: 
 + 
 +  * **crYOLO** for picking ([[https://cryolo.readthedocs.io/en/latest/|download]]). 
 +  * **Cinderella** for 2D class selection ([[http://sphire.mpg.de/wiki/doku.php?id=auto_2d_class_selection|download]]). 
 +  * **GPU ISAC** for 2D clustering ([[https://sphire.mpg.de/wiki/doku.php?id=gpu_isac|download]]). 
 +  * **Unblur** ships with ([[https://cistem.org/|cisTEM]]).
  
 <note warning> <note warning>
-SPHIRE does not support Windows+SPHIRE does not support Windows.
 </note> </note>
- 
-These external tools will be needed to run all tools in SPHIRE: 
-  * [[https://cryolo.readthedocs.io/en/latest/|crYOLO download]] 
-  * [[http://sphire.mpg.de/wiki/doku.php?id=auto_2d_class_selection|Cinderella download]] 
-  * Unblur ships with [[https://cistem.org/|cisTEM]] 
-  * [[gpu_isac|GPU ISAC]] 
  
 <note tip> <note tip>
 **TranSPHIRE for automatated preprocessing** **TranSPHIRE for automatated preprocessing**
  
-Furthermore, we recommend to use TranSPHIRE for automated preprocessing: [[https://github.com/MPI-Dortmund/transphire|TranSPHIRE GitHub page]]+You can use TranSPHIRE to automate the cryo-EM pre-processing pipeline. When combined with AutoSPHIRE, you can also use TranSPHIRE to produce on-the-fly reconstructions during data acquisition ([[https://github.com/MPI-Dortmund/transphire|GitHub]], [[https://transphire.readthedocs.io/|documentation]]).
 </note> </note>
  
- +===== Installation instructions =====
-==== Installation instructions ====+
  
 Find the installation instructions here: Find the installation instructions here:
sphire_1_4.txt · Last modified: 2021/07/08 12:01 by mstabrin

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