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, haubold@evolbio.mpg.de
Make sure you've installed the packages git, golang,
libdivsufsort-dev, make, ncbi-blast+, phylonium, primer3, and noweb. Then make the programs.
$ make
The directory bin now contains the binaries, scripts are in
scripts.
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 --env="DISPLAY" --net=host -v ~/fox_share:/home/jdoe/fox_share --detach-keys="ctrl-@" fox
This constructs the directoryfox_sharein your home directory and in the container's home directory, for sharing files between the two environments.
Make sure you've installed the packages git, make, noweb, texlive-science,
texlive-pstricks, texlive-latex-extra,
and texlive-fonts-extra. Then make the documentation.
$ make doc
The documentation is now in doc/furDoc.pdf.