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ifACCPass(int, int, List<Integer>, double, boolean) - Static method in class Filters
 
ifACCPass(int, int, List<Integer>, double, boolean) - Static method in class Terminus
 
ifAllTheSame(int, int) - Method in class QS_double
 
ifBurExpDCAPass(int, int, List<Integer>, double, double, double) - Static method in class BuriedExposed
 
ifBurExpDCAPass(int, int, List<Integer>, double, double, double) - Static method in class Filters
 
ifConservMarksPass(MSAanalysis, int, int, String, String, boolean) - Static method in class Filters
 
ifConservMarksPass(MSAanalysis, int, int, String, String, boolean) - Static method in class HighlyConserved
 
ifEntropyPass(MSAanalysis, int, int, double, boolean, boolean) - Static method in class Filters
 
ifEntropyPass(MSAanalysis, int, int, double, boolean, boolean) - Static method in class LowEntropy
 
ifFirstCysMarksPass(int, int, String, String, List<String>) - Static method in class Filters
 
ifFirstCysMarksPass(int, int, String, String, List<String>) - Static method in class NonStrongestCysCys
 
ifGapsFreqPass(MSAanalysis, int, int, boolean, double) - Static method in class Filters
 
ifGapsFreqPass(MSAanalysis, int, int, boolean, double) - Static method in class FrequentGaps
 
ifPassInterNextSS(List<int[]>, int, int, int, int, int) - Static method in class Filters
 
ifPassInterNextSS(List<int[]>, int, int, int, int, int) - Static method in class InterSecondary
 
ifPassIntraSS(List<int[]>, List<String>, int, int, String, int) - Static method in class Filters
 
ifPassIntraSS(List<int[]>, List<String>, int, int, String, int) - Static method in class IntraSecondary
 
ifPassIntraSSMarks(List<int[]>, List<String>, int, int, int) - Static method in class Filters
 
ifPassIntraSSMarks(List<int[]>, List<String>, int, int, int) - Static method in class SecondaryStraddling
 
ifSeqSepPass(int, int, double, int) - Static method in class Filters
 
ifSeqSepPass(int, int, double, int) - Static method in class InterTerminus
 
Index - Variable in class QS_double
 
IndexInit() - Method in class QS_double
 
InterSecondary - Class in <Unnamed>
Run inter-secondary structure filter and create report of filtered-out contacts.
InterSecondary() - Constructor for class InterSecondary
 
InterTerminus - Class in <Unnamed>
Run inter-terminus filter and create report of filtered-out contacts.
InterTerminus() - Constructor for class InterTerminus
 
IntraSecondary - Class in <Unnamed>
Run intra-secondary structure filter and create report of filtered-out contacts.
IntraSecondary() - Constructor for class IntraSecondary
 
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