- ReadFile - Class in <Unnamed>
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Gives a whole containing of a file in a single String.
- runAccAnalysis(int, File, int, int, int, int, int) - Method in class ParamAnalysis
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Analyze solvent accessibility coefficient of variation (accVarCoeff) in file.
- runExposeAnalysis(int, File, int, int, int, int, int, int, int, List<Integer>, String) - Method in class ParamAnalysis
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Analyze exposition of residues (accIfCreateBuried, accHowManyCreateBuried, accIfCreateExposed, accHowManyCreateExposed, accBurBur, accExpExp, accExpBur, accGlobal).
- runPredictedAccAnalysis(int, List<double[]>, int, int, int, List<Integer>) - Method in class ParamAnalysis
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Analyze solvent accessibility coefficient of variation (accVarCoeff) for ACC predicted with ACCpro.
- runPredictedAccAnalysis(int, File, int, int, int, List<Integer>, List<Integer>) - Method in class ParamAnalysis
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Analyze solvent accessibility coefficient of variation (accVarCoeff) for ACC predicted with ACCpro.
- runPredictedExposeAnalysis(int, List<double[]>, int, int, int, List<Integer>) - Method in class ParamAnalysis
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Analyze exposition of residues (accIfCreateBuried, accHowManyCreateBuried, accIfCreateExposed, accHowManyCreateExposed, accBurBur, accExpExp, accExpBur, accGlobal) on the basis of RSA predicted with ACCpro.
- runPredictedExposeAnalysis(int, File, int, int, int, List<Integer>, List<Integer>) - Method in class ParamAnalysis
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Analyze exposition of residues (accIfCreateBuried, accHowManyCreateBuried, accIfCreateExposed, accHowManyCreateExposed, accBurBur, accExpExp, accExpBur, accGlobal) on the basis of RSA predicted with ACCpro.
- runPredictedSsAnalysis(int, List<double[]>, int, int, int, String, List<Character>) - Method in class ParamAnalysis
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Analyze occurrence of chosen SS in top results on the basis of SSpro prediction.
- runPredictedSsAnalysis(int, File, int, int, int, String, List<Character>, List<Integer>) - Method in class ParamAnalysis
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Analyze occurrence of chosen SS in top results on the basis of SSpro prediction.
- runRelatAccAnalysis(int, File, int, int, int, int, int, int, int) - Method in class ParamAnalysis
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Analyze relative solvent accessibility coefficient of variation (accVarCoeff).
- runSeparationAnalysis(int, List<double[]>, int, int, int) - Method in class ParamAnalysis
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Analyze separation reduction in a list with data (sepReduction).
- runSeparationAnalysis(int, File, int, int, int) - Method in class ParamAnalysis
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Analyze separation reduction in a file (sepReduction).
- runSpreadAnalysis(int, List<double[]>, int, int, int, int) - Method in class ParamAnalysis
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Analyze several statistics of the data column in a list with data (variationCoeff, quartileSpread, standDev, dcaSpread, robVariationCoeff, quartileVarCoeff).
- runSpreadAnalysis(int, File, int, int, int, int) - Method in class ParamAnalysis
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Analyze several statistics of the data column in a file (variationCoeff, quartileSpread, standDev, dcaSpread, robVariationCoeff, quartileVarCoeff).
- runSsAnalysis(int, File, int, int, int, int, int, String, List<Character>) - Method in class ParamAnalysis
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Analyze occurrence of chosen SS in top results.
- runTpAnalysis(int, File, int, int, int, int, double) - Method in class ParamAnalysis
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Analyze TP rate in a set of files (TPrates).
- runTpAnalysis(int, File, int, int, int, int) - Method in class ParamAnalysis
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Analyze TP rate in a set of files (TPrates).