recipe lorikeet-genome

Metagenomic Variant Calling & Diversity Analysis

Homepage:

https://github.com/rhysnewell/Lorikeet

Documentation:

https://rhysnewell.github.io/Lorikeet/

License:

GPL3

Recipe:

/lorikeet-genome/meta.yaml

Lorikeet aims to call variants in metagenomes using local reassembly of haplotypes.

package lorikeet-genome

Versions:

0.7.3-1,  0.7.3-0,  0.7.2-1,  0.7.2-0,  0.7.1-0,  0.7.0-0,  0.6.6-0,  0.5.0-0,  0.4.0-0, 

0.7.3-1,  0.7.3-0,  0.7.2-1,  0.7.2-0,  0.7.1-0,  0.7.0-0,  0.6.6-0,  0.5.0-0,  0.4.0-0,  0.3.7-1,  0.3.7-0,  0.3.6-1,  0.3.6-0,  0.3.5-0,  0.3.4-0,  0.3.2-0

Depends:

• bcftools

• bwa >=0.7.17

• bwa-mem2 >=2.2.1

• dashing

• fastani

• gsl >=2.7,<2.8.0a0

• htslib >=1.16,<1.17.0a0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• libstdcxx-ng >=12

• libzlib >=1.2.12,<1.3.0a0

• matplotlib-base

• minimap2

• ngmlr

• numpy

• openssl >=1.1.1q,<1.1.2a

• parallel

• polars

• prodigal

• python >=3.9

• samtools >=1.9

• scikit-allel

• scipy

• starcode

• svim

• vt

• zlib >=1.2.12,<1.3.0a0

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install lorikeet-genome

and update with:

conda update lorikeet-genome

or use the docker container:

docker pull quay.io/biocontainers/lorikeet-genome:<tag>

(see lorikeet-genome/tags for valid values for <tag>)

Download stats

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/lorikeet-genome/README.html)