A C D E F G H I J L M N O P R S T U V W

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isAmbiguosProtein(String) - Static method in class compbio.data.sequence.SequenceUtil

Check whether the sequence confirms to amboguous protein sequence

isDefault() - Method in class compbio.metadata.Limit

isExceeded(List<FastaSequence>) - Method in class compbio.metadata.Limit

Checks if the number of sequences or their average length in the dataset exceeds this limit.

isNonAmbNucleotideSequence(String) - Static method in class compbio.data.sequence.SequenceUtil

Ambiguous DNA chars : AGTCRYMKSWHBVDN // differs from protein in only one (!) - B char

isNucleotideSequence(FastaSequence) - Static method in class compbio.data.sequence.SequenceUtil

isProteinSequence(String) - Static method in class compbio.data.sequence.SequenceUtil

isRequired - Variable in class compbio.metadata.Option

isRequired() - Method in class compbio.metadata.Option

Flag that indicated that this option must be specified in the command line for an executable to run

isValidClustalFile(InputStream) - Static method in class compbio.data.sequence.ClustalAlignmentUtil

Please note this method closes the input stream provided as a parameter