Fit3DMatch (singa-structure 0.3.3 API)

java.lang.Object
- de.bioforscher.singa.structure.algorithms.superimposition.fit3d.Fit3DMatch

All Implemented Interfaces:

Comparable<Fit3DMatch>
```
public class Fit3DMatch
extends Object
implements Comparable<Fit3DMatch>
```
A data object encapsulating a match of the Fit3D algorithms.

Author:

fk

Field Summary

Fields
Modifier and Type Field and Description

static String CSV_HEADER

Fields
Modifier and Type	Field and Description
`static String`	`CSV_HEADER`

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`int`	`compareTo(Fit3DMatch other)`
`String`	`getAlignedSequence()`
`StructuralMotif`	`getCandidateMotif()`
`Optional<Map<String,ECNumber>>`	`getEcNumbers()`
`StructuralMotif.Type`	`getMatchType()`
`Optional<Map<String,PfamIdentifier>>`	`getPfamIdentifiers()`
`double`	`getPvalue()`
`double`	`getRmsd()`
`String`	`getStructureTitle()`
`SubstructureSuperimposition`	`getSubstructureSuperimposition()`
`Optional<Map<String,UniProtIdentifier>>`	`getUniProtIdentifiers()`
`static Fit3DMatch`	`of(double rmsd)`
`static Fit3DMatch`	`of(double rmsd, SubstructureSuperimposition substructureSuperimposition)`
`static Fit3DMatch`	`of(double rmsd, SubstructureSuperimposition substructureSuperimposition, double pvalue)`
`void`	`setPvalue(double pvalue)`
`String`	`toCsvLine()`
`String`	`toString()`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail
- CSV_HEADER
```
public static final String CSV_HEADER
```
  See Also:
  
  Constant Field Values

Method Detail

of

public static Fit3DMatch of(double rmsd)

of

public static Fit3DMatch of(double rmsd,
                            SubstructureSuperimposition substructureSuperimposition)

of

public static Fit3DMatch of(double rmsd,
                            SubstructureSuperimposition substructureSuperimposition,
                            double pvalue)

getAlignedSequence
```
public String getAlignedSequence()
```

getCandidateMotif

public StructuralMotif getCandidateMotif()

getMatchType

public StructuralMotif.Type getMatchType()

getUniProtIdentifiers

public Optional<Map<String,UniProtIdentifier>> getUniProtIdentifiers()

getPfamIdentifiers

public Optional<Map<String,PfamIdentifier>> getPfamIdentifiers()

getEcNumbers

public Optional<Map<String,ECNumber>> getEcNumbers()

getStructureTitle
```
public String getStructureTitle()
```

toString
```
public String toString()
```
Overrides:

toString in class Object

getSubstructureSuperimposition

public SubstructureSuperimposition getSubstructureSuperimposition()

getRmsd
```
public double getRmsd()
```

getPvalue
```
public double getPvalue()
```

setPvalue
```
public void setPvalue(double pvalue)
```

toCsvLine
```
public String toCsvLine()
```

compareTo
```
public int compareTo(Fit3DMatch other)
```
Specified by:

compareTo in interface Comparable<Fit3DMatch>

Class Fit3DMatch

Field Summary

Method Summary

Methods inherited from class java.lang.Object

Field Detail

CSV_HEADER

Method Detail

of

of

of

getAlignedSequence

getCandidateMotif

getMatchType

getUniProtIdentifiers

getPfamIdentifiers

getEcNumbers

getStructureTitle

toString

getSubstructureSuperimposition

getRmsd

getPvalue

setPvalue

toCsvLine

compareTo