ProteinSecondaryStructure (Episteme API Documentation)

java.lang.Object

org.episteme.natural.biology.ProteinSecondaryStructure

public final class ProteinSecondaryStructure extends Object

Predicts protein secondary structure (alpha helices, beta sheets, coils).

Nested Class Summary

Nested Classes

Modifier and Type

Class

Description

static final record

ProteinSecondaryStructure.StructurePrediction

static enum

ProteinSecondaryStructure.StructureType
Method Summary

Modifier and Type

Method

Description

static Map<ProteinSecondaryStructure.StructureType, Real>

calculateComposition(String prediction)

Calculates secondary structure composition.

static List<Map.Entry<ProteinSecondaryStructure.StructureType, int[]>>

findElements(String prediction)

Finds secondary structure elements (segments).

static ProteinSecondaryStructure.StructurePrediction

predict(String sequence)

Predicts secondary structure using Chou-Fasman method.

Methods inherited from class Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Method Details
- predict
  
  public static ProteinSecondaryStructure.StructurePrediction predict(String sequence)
  
  Predicts secondary structure using Chou-Fasman method.
- calculateComposition
  
  public static Map<ProteinSecondaryStructure.StructureType, Real> calculateComposition(String prediction)
  
  Calculates secondary structure composition.
- findElements
  
  public static List<Map.Entry<ProteinSecondaryStructure.StructureType, int[]>> findElements(String prediction)
  
  Finds secondary structure elements (segments).