public abstract class SugimotoLongDanglingEndMethod extends PatternComputation
collector, fileName| Constructor and Description |
|---|
SugimotoLongDanglingEndMethod() |
| Modifier and Type | Method and Description |
|---|---|
ThermoResult |
computeThermodynamics(NucleotidSequences sequences,
int pos1,
int pos2,
ThermoResult result) |
protected int[] |
correctPositions(int pos1,
int pos2,
int duplexLength)
corrects the pattern positions in the duplex to have the adjacent
base pair of the pattern included in the subsequence between the positions pos1 and pos2
|
boolean |
isApplicable(Environment environment,
int pos1,
int pos2) |
boolean |
isMissingParameters(NucleotidSequences sequences,
int pos1,
int pos2)
Check if one thermodynamic parameter is missing to compute the enthalpy and entropy of the pattern
at the positions pos1 and pos2.
|
getCollector, getData, getDataFileName, initialiseFileName, loadData, loadFilepublic boolean isApplicable(Environment environment, int pos1, int pos2)
isApplicable in interface PatternComputationMethodisApplicable in class PatternComputationpublic ThermoResult computeThermodynamics(NucleotidSequences sequences, int pos1, int pos2, ThermoResult result)
computeThermodynamics in interface PatternComputationMethodcomputeThermodynamics in class PatternComputationsequences - which contains the sequences entered by the user.result - which contains the computed enthalpy, entropy and melting temperature.public boolean isMissingParameters(NucleotidSequences sequences, int pos1, int pos2)
PatternComputationMethodisMissingParameters in interface PatternComputationMethodisMissingParameters in class PatternComputationsequences - which contains the sequences entered by the user.protected int[] correctPositions(int pos1,
int pos2,
int duplexLength)
pos1 - : starting position of the internal looppos2 - : ending position of the internal loopduplexLength - : total length of the duplex