recipe lorikeet-genome

Metagenomic Variant Calling & Diversity Analysis

Homepage

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

0.6.6-0,  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, 

0.6.6-0,  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

• dashing

• fastani

• gsl >=2.7,<2.8.0a0

• htslib >=1.15.1,<1.16.0a0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=10.3.0

• libstdcxx-ng >=10.3.0

• libzlib >=1.2.11,<1.3.0a0

• matplotlib-base

• minimap2

• ngmlr

• numpy

• openssl >=1.1.1o,<1.1.2a

• parallel

• prodigal

• pysam >=0.16

• python >=3.9

• samtools >=1.9

• scikit-bio

• scikit-learn

• seaborn

• starcode

• svim

• vt

• zlib >=1.2.11,<1.3.0a0

Required By

Installation

With an activated Bioconda channel (see 2. 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:

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