align_seq_mtx2grs: Convert amino acid symbols to groups according to their...
In michalstolarczyk/BALCONY: Better ALignment CONsensus analYsis

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")

`aligned_sequences_matrix`	A matrix that contains aligned sequences. It is an output of `alignment2matrix` function
`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

data(alignment)
alignment = delete_isoforms(alignment)
grouping_method = "general"
aligned_sequences_matrix = alignment2matrix(alignment)
grouped = align_seq_mtx2grs(aligned_sequences_matrix,grouping_method)