NAME
concentrations.pl, concentrations-same.pl — extract and normalize mole fractions
SYNOPSIS
concentrations.pl PREFIX.br concentrations-same.pl PREFIX
DESCRIPTION
concentrations.pl reads PREFIX.conc (written by concentration) and normalizes the concentrations of each species. The raw concentration of each species is divided by the sum of the concentrations so that the sum of A, B, AA, BB and AB is 1.
concentrations-same.pl reads a file written by concentration-same and writes PREFIX.A, PREFIX.Au, PREFIX.Af and PREFIX.AA.
It is recommended to use hybrid2.pl to run hybrid, hybrid-ss, concentration, concentrations.pl and ensemble-dg and ensemble-ext instead of running concentrations.pl directly.
REFERENCES
Markham, N. R. and Zuker, M. (2008) UNAFold: software for nucleic acid folding and hybridization. In Keith, J. M., editor, Bioinformatics, Volume II. Structure, Functions and Applications, number 453 in Methods in Molecular Biology, chapter 1, pages 3-31. Humana Press, Totowa, NJ. ISBN 978-1-60327-428-9.
Other references which may be useful may be found at http://www.unafold.org/Dinamelt/dinamelt-references.php
SEE ALSO
concentration(1), concentration-same(1), hybrid2.pl(1)
AUTHORS
Nick Markham <markham@alum.rpi.edu> and Michael Zuker <zukerm@alum.mit.edu>
COPYRIGHT
Copyright (c) 2006-2021, Rensselaer Polytechnic Institute.
AVAILABILITY
UNAFold is available from http://www.unafold.org/Dinamelt/software/obtaining-unafold.php. Commercial use requires a license; see https://ipo.rpi.edu/invention/unafold-version-40.