Bios2cor (2.0)

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From Biological Sequences and Simulations to Correlation Analysis.

http://cran.r-project.org/web/packages/Bios2cor

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 and utility tools are provided in: (1) Pele J, Moreau M, Abdi H, Rodien P, Castel H, Chabbert M (2014) and (2) Taddese B, Deniaud M, Garnier A, Tiss A, Guissouma H, Abdi H, Henrion D, Chabbert M (2018) . This work was supported by the French National Research Agency (Grant number: ANR-11-BSV2-026).

Maintainer: Marie Chabbert
Author(s): Bruck Taddese [aut], Antoine Garnier [aut], Madeline Deniaud [aut], Julien Pele [ctb], Lea Bellenger [ctb], Jean-Michel Becu [ctb], Marie Chabbert [aut,cre]

License: GPL (>= 2)

Uses: bigmemory, bio3d, circular, igraph

Released 3 months ago.


2 previous versions

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