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• Category:Working with Objects
  [[Category:Objects_and_Selections|Working with Objects]]
  0 members (0 subcategories, 0 files) - 01:29, 28 March 2014

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• Category:Working with Objects
  [[Category:Objects_and_Selections|Working with Objects]]
  0 members (0 subcategories, 0 files) - 01:29, 28 March 2014
• OLD TOPTOC
  ## '''[[:Category:Objects and Selections|Objects and Selections]]''' ### '''[[:Category:Working with Objects|Working with Objects]]'''
  4 KB (451 words) - 02:16, 28 March 2014
• Category talk:Objects and Selections
  Objects and Selections (7 members, 4 of these are members below, three are other th Working with Selections (2 members)
  505 bytes (68 words) - 01:30, 28 March 2014
• Objects and Selections
  ==Objects and Selections== ...quires in-depth knowledge of selections & representations. You can select objects by more than just their residue name, number, etc; for example
  2 KB (239 words) - 02:16, 28 March 2014
• TOPTOC
  ## '''[[:Category:Objects and Selections|Objects and Selections]]''' ### '''[[:Category:Working with Objects|Working with Objects]]'''
  6 KB (682 words) - 21:17, 28 March 2014
• FindObjectsNearby
  This script returns the names of all objects (in state 1) that are within a certain cutoff distance from your provided t * Find all objects nearby 1j01 and heteroatoms that aren't water. (Contrived example)
  2 KB (325 words) - 02:16, 28 March 2014
• DynoPlot
  ...e can be easily extended to other types of data. For instance, I had this working for an energy vs distance data that I had generated by another script. ...he plot will display data points which can be dragged around Phi,Psi space with the corresponding residue's Phi,Psi angles changing in the structure (PyMol
  2 KB (368 words) - 02:18, 28 March 2014
• PluginArchitecture
  ...d during plugin initialization. It is passed an object which is compatible with the legacy <code>PMGApp</code> instance and provides access to the Tkinter It is important that all Tkinter objects are created with the <code>app.root</code> parent, otherwise legacy plugins won't work in Py
  4 KB (547 words) - 03:24, 10 December 2018
• MtsslTrilaterate
  mtsslTrilaterate is a PyMOL plugin for the trilateration of objects based on distance restraints. ...which is defined by the distances from this object to several "reference" objects. The idea of the program is similar to the Global Positioning System (GPS)
  7 KB (1,169 words) - 15:24, 26 November 2014
• Category:FAQ
  Please post your FAQs here. I suggest you write a Q&A style list with a short answer. More involved answers should link to its own page. Just m ...my files in .mol2 or .pdb format from the menubar. Instead I can open them with the program. I can't even save the images I create in PyMol and obviously t
  0 members (0 subcategories, 0 files) - 01:30, 28 March 2014
• Fetch
  ...file is saved in [[Fetch_Path|fetch_path]], which defaults to the current working directory for PyMOL. ...gical assembly (type=pdb1) from the pdb, split the 60 states into separate objects (multiplex=1), and tell PyMOL to wait for all this to be completed before m
  4 KB (590 words) - 03:58, 4 March 2019
• Talk:Label
  ...s one or more atoms properties over a selection using the python evaluator with a separate name space for each atom. The symbols defined in the name space [[Label]] is great for labeling atoms, residues and objects. For a scene label, see [[Pseudoatom]].
  6 KB (888 words) - 05:42, 31 May 2016
• Cluster mols
  ...ls do not require sdsorter, but it is still a very useful tool for dealing with sdf files. ...zedAffinity' which is inserted into the output sdf file after minimization with 'smina' (An enhanced version of AutoDock Vina. Available at: http://www.smi
  8 KB (1,334 words) - 18:29, 25 May 2022
• User:Mglerner
  I've been working with Jason Vertrees on a new version of the PyMOL-APBS plugin and it's now ready ...I think it runs everywhere, but *please* let me know if you have problems with it. Once it's shown to be stable, it'll be included in the next PyMOL relea
  12 KB (1,841 words) - 18:57, 31 October 2015
• PLoS
  ...from ''(i)'' raw, starting data (''e.g.'', PDB files) to ''(ii)'' actual, working PyMOL or Python scripts and ''(iii)'' final output image files. # Make fancy helices with ridge on the edges like
  41 KB (6,131 words) - 18:10, 31 October 2015