- main(String[]) - Static method in class Main_CreateListWithParams_SINGLE
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- Main_CreateListWithParams_SINGLE - Class in <Unnamed>
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Create a file with parameters calculated for single protein.
- Main_CreateListWithParams_SINGLE() - Constructor for class Main_CreateListWithParams_SINGLE
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- mSAQualityFromHHRfileCheck(String) - Method in class ParamAnalysis
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Check e-values, p-values, and score of sequences in the MSA hhr file (pValAve, eValAve, scoreAve).
- mSASeqNumberCheck(String, String, boolean) - Method in class ParamAnalysis
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Check number of sequences in the MSA file and calculates some scores (mSASeqNmb, ourScoreZscore, gapArea, gapBlockSizeAve).
- mSASeqNumberCheck_AligFragment(String, String, List<Integer>, boolean) - Method in class ParamAnalysis
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Check number of sequences in the MSA file and calculates some scores (mSASeqNmb, ourScoreZscore, gapArea, gapBlockSizeAve).