bracken-nf

Map metagenomic reads to operational taxonomic units (OTUs) using kraken2 and estimate bacterial abundances with bracken.

Usage

Set up nextflow as described here.
If you didn't run this pipeline in a while, possibly update nextflow itself.
```
./nextflow self-update
```

Then run the pipeline.

./nextflow run https://github.com/UnseenBio/bracken-nf

Free software distributed under the GNU Affero General Public License version 3.

Name		Name	Last commit message	Last commit date
Latest commit History 13 Commits
.editorconfig		.editorconfig
.gitignore		.gitignore
LICENSE		LICENSE
README.md		README.md
abundance.nf		abundance.nf
environment.yml		environment.yml
main.nf		main.nf
nextflow.config		nextflow.config