- recipe meta-sparse
SPARSE indexes reference genomes in public databases into hierarchical clusters and uses it to predict origins of metagenomic reads.
- package meta-sparse¶
- depends bowtie2:
- depends libgcc-ng:
- depends mash:
- depends msgpack-python:
- depends numpy:
- depends pandas:
- depends pycapnp:
- depends python:
- depends python_abi:
- depends samtools:
- depends scipy:
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 meta-sparse and update with:: mamba update meta-sparse
To create a new environment, run:
mamba create --name myenvname meta-sparse
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/meta-sparse:<tag> (see `meta-sparse/tags`_ for valid values for ``<tag>``)