Gyration tensor

Type	PyMOL Plugin
Download	git://github.com/VenkyKrishnamani/gyration_tensor.git
Author(s)	Venkatramanan Krishnamani
License	-
This code has been put under version control in the project Pymol-script-repo

Introduction

This program calculates and visualizes the gration tensors of a protein (based on geometry) for each chain in the PDB file.

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How to get it

git clone git://github.com/VenkyKrishnamani/gyration_tensor.git

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Required Dependencies on Linux and Mac OS X

• Tkinter and
• Numpy

sudo apt-get install python-tk python-numpy

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Installing on Linux

• Navigate to plugins > install
• Locate the downloaded gyration_tensor.py file in the dialogbox and select 'OK'
• Quit and Restart 'pymol'

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Usage

• Launch PyMOL
• Navigate to Plugins > Contact Map Visualizer in PyMOL
• When the first dialog box pops up, select PDB file and select 'OK'.
• The plugin calculates and outputs the Magnitude and Direction of the tensors in the debug window and draws the corresponding tensors as a cgo object in the PyMOL opengl window.

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Screenshot

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Copyright

# Copyright Notice
# ================
# 
# The PyMOL Plugin source code in this file is copyrighted, but you are
# free to use and copy it as long as you don't change or remove any of
# the copyright notices.
# 
# -----------------------------------------------------------------------------------
# This PyMOL Plugin Gyration Tensor is
# Copyright (C) 2012 by Venkatramanan Krishnamani <venks@andrew.cmu.edu>
# 
#                        All Rights Reserved
# 
# Permission to use, copy, modify, distribute, and distribute modified
# versions of this software and its documentation for any purpose and
# without fee is hereby granted, provided that the above copyright
# notice appear in all copies and that both the copyright notice and
# this permission notice appear in supporting documentation, and that
# the name(s) of the author(s) not be used in advertising or publicity
# pertaining to distribution of the software without specific, written
# prior permission.
# 
# THE AUTHOR(S) DISCLAIM ALL WARRANTIES WITH REGARD TO THIS SOFTWARE,
# INCLUDING ALL IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS.  IN
# NO EVENT SHALL THE AUTHOR(S) BE LIABLE FOR ANY SPECIAL, INDIRECT OR
# CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS OF
# USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE OR
# OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE OR
# PERFORMANCE OF THIS SOFTWARE.
#

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