This package contains five functions. read.FASTA reads in a
FASTA-format alignment file and parses it into a data frame. read.CX reads
in a ClustalX .aln-format file and parses it into a data frame. read.Gdoc
reads in a GeneDoc .msf-format file and parses it into a data frame. The
alignment data frame returned by each of these functions has the sequence
IDs as the row names and each site in the alignment is a column in the data
frame. The program aaMI calculates the mutual information between each pair
of sites (columns) in the protein sequence alignment data frame. The
program aaMIn calculates the normalized mutual information between pairs of
sites in the protein sequence alignment data frame. The normalized mutual
information of sites i and j is the mutual information of these sites
divided by their joint entropy.

Raja Sekhara Reddy D.M <raja.duvvuru@gmail.com>
Given a protein multiple sequence alignment, it is daunting task to assess the effects of substitutions along sequence length. 'aaSEA' package is intended to help researchers to rapidly analyse property changes caused by single, multiple and correlated amino acid substitutions in proteins. Methods for identification of co-evolving positions from multiple sequence alignment are as described in :  Pelé et al., (2017) <doi:10.4172/2379-1764.1000250>.

person(given = "Nicholas",
family = "Cullen",
role = c("aut", "cre"),
email = "nickcullen31@gmail.com")
A tool to fit clinical prediction models and plan clinical trials
using biomarker data across multiple analysis factors (groups, outcomes,
predictors).
covr, knitr, plotly, rmarkdown, testthat (>= 3.0.0), methods,
tidyselect, nlme, yardstick, pins, Matrix, MuMIn, broom.mixed,
emmeans, ggpubr, pROC, progress, OptimalCutpoints, tableone,
longpower, withr, reactable, psychometric, readr, writexl
purrr, dplyr, broom, tibble, ggplot2, glue, magrittr, stringr,
rlang, tidyr, stats, generics

Strings are abbreviated to at least "minlength" characters, such that they remain unique
(if they were). The abbreviations should be recognisable.