org.biojava.nbio.structure.secstruc

Class SecStrucTools

java.lang.Object

org.biojava.nbio.structure.secstruc.SecStrucTools

public class SecStrucTools
extends Object

This class contains methods for obtaining and converting secondary structure information from BioJava Structures.

Since:

4.1.1

Author:

Aleix Lafita

Constructor Summary

Constructors

Constructor and Description
SecStrucTools()

Method Summary

Modifier and Type	Method and Description
static void	assignSecStruc(Structure s, List<SecStrucInfo> listSSI)
static List<SecStrucElement>	getSecStrucElements(List<Group> groups) Obtain the List of secondary structure elements (SecStrucElement) of a List of Groups (assumed to be sequential, this is, connected in the original Structure).
static List<SecStrucElement>	getSecStrucElements(Structure s) Obtain the List of secondary structure elements (SecStrucElement) of a Structure.
static List<SecStrucInfo>	getSecStrucInfo(Structure s) Obtain the List of secondary structure information (SecStrucInfo) of a Structure.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

SecStrucTools

public SecStrucTools()

Method Detail

getSecStrucInfo

public static List<SecStrucInfo> getSecStrucInfo(Structure s)

Obtain the List of secondary structure information (SecStrucInfo) of a Structure.

Parameters:

s - Structure with SS assignments

Returns:

List of SecStrucInfo objects

assignSecStruc

public static void assignSecStruc(Structure s,
                                  List<SecStrucInfo> listSSI)

getSecStrucElements

public static List<SecStrucElement> getSecStrucElements(Structure s)

Obtain the List of secondary structure elements (SecStrucElement) of a Structure.

Parameters:

s - Structure with SS assignments

Returns:

List of SecStrucElement objects

getSecStrucElements

public static List<SecStrucElement> getSecStrucElements(List<Group> groups)

Obtain the List of secondary structure elements (SecStrucElement) of a List of Groups (assumed to be sequential, this is, connected in the original Structure).

Parameters:

groups - Structure with SS assignments

Returns:

List of SecStrucElement objects