DNATriangulation

A set of scripts for de-novo genome assembly. For more detail read wiki: https://github.com/NoamKaplan/dna-triangulation/wiki

dockers ...

# build image
docker build -t noam_image .
# run it ...
docker run -dit --name noam_container noam_image
# shell into it ...
docker exec -it noam_container bash
#stop it
docker stop noam_container
#rm container
docker rm noam_container
#rm image
docker image rm noam_image

run stuff from inside container

docker exec -it container_name bash
cd scripts
make
make  large_scaffolds
make  karyotype
make  scaffold
make  scaffold_wrap

Copy output data from container to host

docker cp <containerId>:/file/path/within/container /host/path/target