- recipe purge_dups
purge_dups is a package used to purge haplotigs and overlaps in an assembly based on read depth.
- package purge_dups¶
- depends augustus:
- depends blast:
- depends busco:
- depends kmc:
- depends libgcc-ng:
- depends libzlib:
- depends matplotlib-base:
- depends minimap2:
- depends purge-dups-runner:
- depends python:
- depends python_abi:
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 purge_dups and update with:: mamba update purge_dups
To create a new environment, run:
mamba create --name myenvname purge_dups
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).
Alternatively, use the docker container:
docker pull quay.io/biocontainers/purge_dups:<tag> (see `purge_dups/tags`_ for valid values for ``<tag>``)