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localfsc [2015/09/04 15:05]
gcardone
localfsc [2019/06/19 16:22] (current)
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 <WRAP center round info 75%> <WRAP center round info 75%>
-Local resolution analysis of the entire map can be done, using the same methodological approach, with programs ​from [[http://​lsbr.niams.nih.gov/​bsoft/​|Bsoft]]. Specifically,​ local analysis and local adaptive filtering can be performed with //blocres// and //​blocfilt//,​ respectively. For further information please read the article cited below.+Local resolution analysis of the entire map can be done, using the same methodological approach, with programs ​incorporated into [[http://​lsbr.niams.nih.gov/​bsoft/​|Bsoft]]. Specifically,​ local analysis and local adaptive filtering can be performed with //blocres// and //​blocfilt//,​ respectively. For further information please read the article cited below.
 </​WRAP>​ </​WRAP>​
    
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   *     If you don't already have a directory on your computer that is specific for external plugins for chimera, create one.   *     If you don't already have a directory on your computer that is specific for external plugins for chimera, create one.
-  *     ​Download the file [[http://cryoem.ucsd.edu/​programs/​code/​LocalFSC_chimera.tar.gz|LocalFSC_chimera.tar.gz]] in this directory and uncompress it.+  *     ​Download the file [[http://bakerlab.ucsd.edu/​programs/​code/​LocalFSC_chimera.tar.gz|LocalFSC_chimera.tar.gz]] in this directory and uncompress it.
   *     In Chimera, go to Favorites->​Preferences,​ from Category select Tools and add the directory containing the LocalFSC folder to the Locations.   *     In Chimera, go to Favorites->​Preferences,​ from Category select Tools and add the directory containing the LocalFSC folder to the Locations.
  
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 Once opened, the LocalFSC module, a help button provides all the basic information on how to use it and on all the different options available in the interface. Once opened, the LocalFSC module, a help button provides all the basic information on how to use it and on all the different options available in the interface.
  
-In order to get familiar with the module, here is provided a [[http://cryoem.ucsd.edu/​programs/​code/​TestCaseLFSC.tar.gz|Test Dataset]] to download, which contains a simulated reconstruction of a ribosome (see article below for details). Specifically,​ the archive file contains three maps (two half maps and one map from all the particles) and a Chimera marker file with two markers pointing to two domains with different occupancy level.+In order to get familiar with the module, here is provided a [[http://bakerlab.ucsd.edu/​programs/​code/​TestCaseLFSC.tar.gz|Test Dataset]] to download, which contains a simulated reconstruction of a ribosome (see article below for details). Specifically,​ the archive file contains three maps (two half maps and one map from all the particles) and a Chimera marker file with two markers pointing to two domains with different occupancy level.
   * Uncompress the data.   * Uncompress the data.
   * Open the tree maps and the marker file in Chimera.   * Open the tree maps and the marker file in Chimera.