kmeRs_show_alignment: Calculate and Show Alignment Between Two Compared K-mers

In kmeRs: K-Mers Similarity Score Matrix

Description

The kmeRs_show_alignment function aligns and shows calculated alignment between two DNA or RNA sequences

Usage

kmeRs_show_alignment(kmer_A = "", kmer_B = "", submat = "BLOSUM62")

Arguments

kmer_A	given k-mer A
kmer_B	given k-mer B
submat	substitution matrix version, default is 'BLOSUM62'; could be one of 'BLOSUM45', 'BLOSUM50', 'BLOSUM62', 'BLOSUM80', 'BLOSUM100', 'PAM30', 'PAM40', 'PAM70', 'PAM120', 'PAM250'

Value

alignment is returned as a data.frame

Examples

# Example alignment

kmeRs_show_alignment( kmer_A = "AAATTTCCCGGG", kmer_B = "TCACCC" ,submat = "BLOSUM62")

kmeRs documentation built on May 2, 2019, 6:46 a.m.