Description: Utilities for computation and analysis of correlation/covariation in multiple sequence alignments and in side chain motions during molecular dynamics simulations. Features include the computation of correlation/covariation scores using a variety of scoring functions between either sequence positions in alignments or side chain dihedral angles in molecular dynamics simulations and utilities to analyze the correlation/covariation matrix through a variety of tools including network representation and principal components analysis. In addition, several utility functions are based on the R graphical environment to provide friendly tools for help in data interpretation. Examples of sequence covariation analysis are provided in: (1) Pele J, Moreau M, Abdi H, Rodien P, Castel H, Chabbert M (2014) <doi:10.1002/prot.24570> and (2) Taddese B, Deniaud M, Garnier A, Tiss A, Guissouma H, Abdi H, Henrion D, Chabbert M (2018) <doi: 10.1371/journal.pcbi.1006209>. An example of side chain correlated motion analysis is provided in: Taddese B, Garnier A, Abdi H, Henrion D, Chabbert M (2020) <doi: 10.1038/s41598-020-72766-1>. This work was supported by the French National Research Agency (Grant number: ANR-11-BSV2-026) and by GENCI (Grant number: 100567).

Title: Statistics Tutorials for Biologists
Description: Tutorials for statistics, aimed at biological scientists.
Subjects range from basic descriptive statistics
through to complex linear modelling. The tutorials
include text, videos, interactive coding exercises
and multiple choice quizzes. The package also
includes 19 datasets which are used in the
Suggests: ggplot2, car, plotrix, knitr, rmarkdown

Title: Diverse Applications for Biotechnology
Description: A small collection of different functions that will ease the daily life of Biotechnology students.
The different topics covered are: Biochemistry, Immunology, molecular Biology, Bioengineering and daily laboratory routine.
Imports: ggplot2, magrittr, dr4pl, tidyverse

Title: Partition Bipartite Network into Non-Overlapping Biclusters by
Authors@R: c(person(given = "Tianlong",family = "Chen",role = c("aut"),),person(given = "Weibin",family = "Zhang",role = c( "cre","ctb"),email = "wbzhang.ustc@gmail.com"))
Description: Function bipmod() that partitions a bipartite network into non-overlapping biclusters by maximizing bipartite modularity defined in Barber (2007) <doi:10.1103/PhysRevE.76.066102> using the bipartite version of the algorithm described in Treviño (2015) <doi:10.1088/1742-5468/2015/02/P02003>.