calc_pseudo_comp {ampir}

Calculate the pseudo amino acid composition

Description

This function is adapted from the extractPAAC function from the protr package (https://github.com/nanxstats/protr)

Usage

calc_pseudo_comp(seq, lambda_min = 4, lambda_max = 19)

Arguments

seq

A vector of protein sequences as character strings

lambda_min

Minimum allowable lambda. It is an error to provide a protein sequence shorter than lambda_min+1

lambda_max

For each sequence lambda will be set to one less than the sequence length or lambda_max, whichever is smaller

References

Nan Xiao, Dong-Sheng Cao, Min-Feng Zhu, and Qing-Song Xu. (2015). protr/ProtrWeb: R package and web server for generating various numerical representation schemes of protein sequences. Bioinformatics 31 (11), 1857-1859.