I like the way the Protein-Ligand Interaction Profiler (PLIP,
https://projects.biotec.tu-dresden.de/plip-web/plip/index ,
https://pypi.python.org/pypi/plip ,
http://nar.oxfordjournals.org/content/early/2015/04/14/nar.gkv315.full )
highlights different interactions in its PyMol output file, suc
Hi,
In the PyMolWiki under simple scripting parts of the command lines are
color coded(red, blue and green). What does that mean?
cmd.extend(“doSimpleThing”,doSimpleThing)
--
__
Hi Mark,
Those are not command lines, that is Python code. You can use PyMOL inside
a Python script. The PyMOL wiki has a feature to highlight code written in
Python, blue correspond to "strings" orange to "Python keyword" etc. If you
know Python highlighting makes reading code a little bit easier
Hi Amali,
For adding hydrogens, I have found that PyMOL does an OK job normally,
but if you need more accurate placement of hydrogens, I can recommend
using Reduce.
http://kinemage.biochem.duke.edu/software/reduce.php
HTH,
Matthew Baumgartner
On 11/11/2015 02:06 AM, Osvaldo Martin wrote:
