-
recipe
nullarbor¶ Pipeline to generate complete public health microbiology reports from sequenced isolates
- Homepage
- License
GPL2
- Recipe
-
package
nullarbor¶ 
- Versions
2.0.20181010-4, 2.0.20181010-2
- Depends abricate
>=0.8
- Depends bwa
>=0.7.17
- Depends centrifuge
>=1.0
- Depends fasttree
- Depends flash
>=1.2
- Depends iqtree
>=1.6
- Depends kraken
>=1.1
- Depends kraken2
- Depends lighter
>=1.1
- Depends mash
>=2.1
- Depends megahit
>=1.1
- Depends mlst
>=2.1
- Depends newick_utils
- Depends perl
- Depends perl-file-spec
- Depends perl-findbin
- Depends perl-path-tiny
- Depends perl-yaml-tiny
- Depends pigz
- Depends pilon
>=1.22
- Depends prokka
>=1.12
- Depends quicktree
>=2.4
- Depends roary
>=3.0
- Depends samclip
>=0.2
- Depends samtools
>=1.8
- Depends seqtk
>=1.3
- Depends shovill
>=1.0
- Depends skesa
>=2.3
- Depends snippy
>=4.2
- Depends snp-dists
>=0.6
- Depends spades
>=3.6
- Depends trimmomatic
>=0.36
- Depends velvet
>=1.2.10
- Requirements
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install nullarbor
and update with:
conda update nullarbor
or use the docker container:
docker pull quay.io/biocontainers/nullarbor:<tag>
(see nullarbor/tags for valid values for
<tag>)
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/nullarbor/README.html)