org.biojava.bio.program.hmmer
Class FullHmmerProfileHMM
java.lang.Object
org.biojava.utils.AbstractChangeable
org.biojava.bio.dp.SimpleMarkovModel
org.biojava.bio.program.hmmer.FullHmmerProfileHMM
- All Implemented Interfaces:
- Serializable, MarkovModel, Changeable
public class FullHmmerProfileHMM
- extends SimpleMarkovModel
This is a class for representing the full HMMER generated Profile HMM (including loop
states N and C terminal looping states).
- Since:
- 1.3
- Author:
- Lachlan Coin
- See Also:
- Serialized Form
Methods inherited from class org.biojava.bio.dp.SimpleMarkovModel |
addState, advance, containsTransition, createTransition, destroyTransition, emissionAlphabet, getChangeSupport, getWeights, heads, magicalState, removeState, setWeights, stateAlphabet, toString, transitionsFrom, transitionsTo |
jState
public EmissionState jState()
- Gets the J loop state
cState
public EmissionState cState()
- Gets the c loop state
nState
public EmissionState nState()
- Gets the n loop state
hmm
public ModelInState hmm()
- Gets the inner HmmerProfileHMM state