fur: Find Unique Regions
The program fur takes as input a set of target genome sequences and
a set of related genome sequences, the neighbors. It returns the
sequence regions common to all targets that are absent form the
neighbors. Such regions can be used as candidate genetic markers.
Bernhard Haubold and Beatriz Vieira Mourato
If you are on an Ubuntu system like Ubuntu on wsl under MS-Windows or the Ubuntu Docker container, you can clone the repository and change into it.
git clone https://github.com/evolbioinf/fur
cd fur
Then install the additional dependencies by running the script
setup.sh.
bash scripts/setup.sh
Make the programs.
make
The directory bin now contains the binaries.
As an alternative to building fur, we also post it as a docker
container. The container
includes all programs needed to work through the tutorial at the end
of the documentation in ~/furDoc.pdf.
docker pull haubold/fox
docker run -it --detach-keys="ctrl-@" fox
Haubold, B., Klötzl, F., Hellberg, L., Thompson, D., & Cavalar, M. (2021). Fur: Find unique genomic regions for diagnostic PCR. Bioinformatics, 37(15), 2081-2087.
Vieira Mourato, B., Tsers, I., Denker, S., Klötzl, F., & Haubold, B. (2024). Marker discovery in the large. Bioinformatics Advances, 4(1), vbae113.