cons2seqs_ident: Identity of each sequence in the alignment to the consensus...
In BALCONY: Better ALignment CONsensus analYsis

Description Usage Arguments Details Value Author(s) See Also Examples

The function calculates identity of consensus to each sequence in the alignment. It facilitates an assessment of consensus accuracy and identification of outlying sequences in the alignment. Also, it can be used to weight conservativity metrics results in further steps of analysis with BALCONY package.

1	cons2seqs_ident(alignment, consensus_seq)

`alignment`	Data loaded with `read.alignment` function
`consensus_seq`	Consensus sequence (output of `consensus` function)

Returned values are percentage of identical symbols (AA and "-") in consensus sequence and aligned sequence.

percentage

Numeric vector of identity score (percentage); positions in the numeric vector correspond to sequences in alignment, respectively

Alicja Pluciennik & Michal Stolarczyk

consensus cons2seqs_sim

data("alignment")
alignment = delete_isoforms(alignment)
threshold=60
consensus=consensus(alignment, threshold)
true_consensus=cons2seqs_ident(alignment, consensus)