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java.lang.Objectfr.umlv.gramofone.proteins.Homologies
public class Homologies
Manage homologies of proteins
| Constructor Summary | |
|---|---|
Homologies(CyNetwork network,
MyPattern pattern,
GMTask task)
Compute homologies between proteins Retrieve fasta from internet if no fasta file given |
|
| Method Summary | |
|---|---|
java.util.Set<java.lang.String> |
computePatternProteinWithoutHomologs(java.util.Set<java.lang.String> set)
Return the set of pattern proteins without homologous proteins in the network |
double |
h(java.lang.String n,
java.lang.String q)
get the hhomologie between the network node n and the query node q |
boolean |
multiH(java.lang.String n,
java.util.Set<java.lang.String> qs)
Homologie for multiset |
| Methods inherited from class java.lang.Object |
|---|
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
| Constructor Detail |
|---|
public Homologies(CyNetwork network,
MyPattern pattern,
GMTask task)
network - pattern - task - | Method Detail |
|---|
public double h(java.lang.String n,
java.lang.String q)
n - a network nodeq - a query node
public boolean multiH(java.lang.String n,
java.util.Set<java.lang.String> qs)
n - qs -
public java.util.Set<java.lang.String> computePatternProteinWithoutHomologs(java.util.Set<java.lang.String> set)
set -
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