Description Usage Arguments Value Examples
This function performs a conversion of amino acid symbols to group symbols according to their properties. Implemented grouping methods are: substitution_matrix (majority of properties taken into account), polarity, size and aromaticity. "GX", where X stands for group number, are group symbols.
1 2 | align_seq_mtx2grs(aligned_sequences_matrix,
grouping_method = "substitution_matrix")
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aligned_sequences_matrix |
A matrix that contains aligned sequences. It is an output of |
grouping_method |
A string which specifies the grouping method to be used. One of following: 'substitution_matrix', 'polarity', 'size', 'aromaticity' |
A matrix of size of the input matrix but with group symbols instead of amino acid symbols
1 2 3 4 5 | data(alignment)
alignment = delete_isoforms(alignment)
grouping_method = "general"
aligned_sequences_matrix = alignment2matrix(alignment)
grouped = align_seq_mtx2grs(aligned_sequences_matrix,grouping_method)
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