recipe bakdrive

Bakdrive finds a minimum set of driver species from real metagenomic samples and simulates fecal microbial transplantation (FMT) process






package bakdrive

(downloads) docker_bakdrive



depends biopython:

depends micom:

depends pulp:

depends python:




You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bakdrive

and update with::

   mamba update bakdrive

To create a new environment, run:

mamba create --name myenvname bakdrive

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull<tag>

(see `bakdrive/tags`_ for valid values for ``<tag>``)

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