recipe sylph

sylph quickly enables querying of genomes against even low-coverage shotgun metagenomes to find nearest neighbour ANI.

Homepage:

https://github.com/bluenote-1577/sylph

Documentation:

https://github.com/bluenote-1577/sylph/blob/v0.8.0/README.md

License:

MIT / MIT

Recipe:

/sylph/meta.yaml

Links:

doi: 10.1038/s41587-024-02412-y, biotools: sylph

package sylph

(downloads) docker_sylph

versions:
0.8.0-0,  0.7.0-2,  0.7.0-1,  0.7.0-0,  0.6.1-0,  0.6.0-0,  0.5.1-0,  0.5.0-0,  0.4.1-0, 

0.8.0-0,  0.7.0-2,  0.7.0-1,  0.7.0-0,  0.6.1-0,  0.6.0-0,  0.5.1-0,  0.5.0-0,  0.4.1-0,  0.4.0-0,  0.3.0-0,  0.2.0-0,  0.1.0-0,  0.0.3-0,  0.0.2-0

depends libgcc:

>=13

depends libstdcxx:

>=13

requirements:

additional platforms:
linux-aarch64,  osx-arm64

Installation

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 sylph

and update with::

   mamba update sylph

To create a new environment, run:

mamba create --name myenvname sylph

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 quay.io/biocontainers/sylph:<tag>

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

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Link to this page

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