rna-ensemble-distance-with-ViennaRNA

rna-ensemble-distance: calculate designed sequence properties

This is a small utility program called rna-ensemble-distance that can be used to compute ensemble properties of a designed sequence with ViennaRNA-1.8.5. The program takes a sequence and an optional target structure as input.

Running rna-ensemble-distance

./rna-ensemble-distance GGGAAACCC '(((...)))'

# target_p is the probability of the target structure in the ensemble
# target_ens_defect is the ensemble defect of the target structure

Build instructions

Simply run make in this directory:

make

Tested with gcc-11.3.0 on Ubuntu 22.04. The Makefile by default downloads and builds ViennaRNA-1.8.5. It automatically applies a small patch that is needed to build ViennaRNA-1.8.5 with newer compilers, see the build-ViennaRNA-1.8.5.bash script for details.

In case you already have ViennaRNA-1.8.5 installed (header files and static library), you can run:

make VIENNA=/path/to/installed/ViennaRNA-1.8.5