NAME
plot2ann.pl — create probability annotations from a .plot file
SYNOPSIS
plot2ann.pl FILE.plot FILE.ct
DESCRIPTION
plot2ann.pl writes probability annotations for the structure in FILE.ct using the probabilities in FILE.plot. Both bases of each base pair are annotated with the probability of that pair; each single-stranded base is annotated with the probability that it is single-stranded.
When stored in FILE.ann, the output can be used for structure annotation in sir_graph.
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
hybrid-ss-min(1), hybrid-min(1)
AUTHORS
Nick Markham <markham@alum.rpi.edu> and Michael Zuker <zukerm@alum.mit.edu>
COPYRIGHT
Copyright (c) 2006-2021, Rensselaer Polytechnic Institute.
AVAILABILITY
Both commercial and non-commercial use of UNAFold require a license from RPI; see https://ipo.rpi.edu/invention/unafold-version-40.