IMP.isd.TALOSReader.TALOSReader Class Reference

reads a TALOS file, or a TALOS folder, and stores the data More...

Detailed Description

reads a TALOS file, or a TALOS folder, and stores the data

Note

This class is only available in Python.

Definition at line 14 of file TALOSReader.py.

Public Member Functions
def	__init__
	start the TALOSReader sequence : a dictionary of sequence number keys and 3-letter code values. More...
def	add_full_datum
	in the case of a list of predictions for one residue, add an entry to data which is: 'full' : always True 'num' : number of predictions 'phi' : the list of predictions for phi 'psi' : same for psi More...
def	add_mean_datum
	in the case of a single (average) prediction output by talos for a given residue, add an entry to data which is: 'full' : always False 'num' : the number of matches this average was calculated from 'phi' : a tuple in the form (mean, error) 'psi' : same as phi. More...
def	read
	reads a TALOS file and returns data. More...

Constructor & Destructor Documentation

def IMP.isd.TALOSReader.TALOSReader.__init__	(		self,
			sequence,
			detailed_input,
			keep_all = False,
			sequence_match = (1, 1
	)

start the TALOSReader sequence : a dictionary of sequence number keys and 3-letter code values.

detailed_input : True if the input will be either predAll.tab or the pred/res???.tab files. False if it's pred.tab keep_all : whether to keep outliers or not, when detailed_input==True. sequence_match : in the form (talos_no, sequence_no), assigns a correspondence between residue numberings.

Definition at line 23 of file TALOSReader.py.

Member Function Documentation

def IMP.isd.TALOSReader.TALOSReader.add_full_datum	(		self,
			resno,
			phi,
			psi
	)

in the case of a list of predictions for one residue, add an entry to data which is: 'full' : always True 'num' : number of predictions 'phi' : the list of predictions for phi 'psi' : same for psi

Definition at line 35 of file TALOSReader.py.

def IMP.isd.TALOSReader.TALOSReader.add_mean_datum	(		self,
			resno,
			num,
			phi,
			psi
	)

in the case of a single (average) prediction output by talos for a given residue, add an entry to data which is: 'full' : always False 'num' : the number of matches this average was calculated from 'phi' : a tuple in the form (mean, error) 'psi' : same as phi.

Definition at line 50 of file TALOSReader.py.

def IMP.isd.TALOSReader.TALOSReader.read	(		self,
			fname
	)

reads a TALOS file and returns data.

See add_datum methods.

Definition at line 131 of file TALOSReader.py.

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The documentation for this class was generated from the following file:

• TALOSReader.py