Average b

average_b.py

• calculate the average B-factor of a selection.

usage

• copy code to text file and save as average_b.py. Install via Plugin>Install plugin from within PyMOL.
• restart PyMOL and then type "average_b (selection)"

author

Gregor Hagelueken

code

from pymol import cmd,stored
def average_b(selection):
	stored.tempfactor = 0
	stored.atomnumber = 0
	cmd.iterate(selection, "stored.tempfactor = stored.tempfactor + b")
	cmd.iterate(selection, "stored.atomnumber = stored.atomnumber + 1")
	print "Your selection: %s" % selection
	print "sum of B factors: %s" % stored.tempfactor
	print "number of atoms: %s" % stored.atomnumber
	averagetempfactor = stored.tempfactor / stored.atomnumber
	print "average B of '%s': %s" % (selection, averagetempfactor)
cmd.extend("average_b", average_b)