recipe metagenome-atlas

ATLAS - Three commands to start analysing your metagenome data

Homepage

https://github.com/metagenome-atlas

Documentation

https://metagenome-atlas.rtfd.io

Developer docs

https://github.com/metagenome-atlas/atlas

License

BSD / BSD-3-Clause

Recipe

/metagenome-atlas/meta.yaml

Atlas is a easy to use metagenomic pipeline ![scheme of workflow](https://github.com/metagenome-atlas/atlas/blob/f8627545bcfb8f2b55733a35ecd0426ae4bbd5d1/resources/images/ATLAS_scheme.png)

# Quick Start

Three commands to start analysing your metagenome data: ```

conda install -c bioconda -c conda-forge metagenome-atlas atlas init –db-dir databases path/to/fastq/files atlas run

``` All databases and dependencies are installed on the fly in the directory `db-dir`. You want to run these three commands on the example_data on the GitHub repo. If you have more time, then we recommend you configure atlas according to your needs.

- check the `samples.tsv` - edit the `config.yaml` - run atlas on any cluster system

For more details see documentation.

package metagenome-atlas

(downloads) docker_metagenome-atlas

Versions

2.0.6-1, 2.0.5-1, 2.0.4-1, 2.0.3-1, 2.0.1-1, 2.0.1-0

Depends
Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install metagenome-atlas

and update with:

conda update metagenome-atlas

or use the docker container:

docker pull quay.io/biocontainers/metagenome-atlas:<tag>

(see metagenome-atlas/tags for valid values for <tag>)