Docker image with rPinecone software.
rPinecone defines sub-lineages within a bacterial clonal expansion via a phylogenetic tree.
You can download this image using the following commands:
# Get Docker image
docker pull ummidock/rpinecone:20190520-01
For examples on how to use rPinecone please check the GitHub page.
If you use rPinecone in your research, please cite:
Wailan AM, Coll F, Heinz E, Tonkin-Hill G, Corander J, Feasey NA, Thomson NR. rPinecone: Define sub-lineages of a clonal expansion via a phylogenetic tree. Microb Genom. 2019 Apr;5(4).