recipe ggcaller

A de Bruijn graph-based gene-caller and pangenome analysis tool

Homepage:

https://github.com/samhorsfield96/ggCaller

License:

MIT

Recipe:

/ggcaller/meta.yaml

package ggcaller

Versions:

1.3.3-0,  1.3.2-0,  1.3.1-0,  1.3.0-1,  1.3.0-0,  1.2.4-2,  1.2.4-1,  1.2.4-0,  1.2.3-0, 

1.3.3-0,  1.3.2-0,  1.3.1-0,  1.3.0-1,  1.3.0-0,  1.2.4-2,  1.2.4-1,  1.2.4-0,  1.2.3-0,  1.2.2-0,  1.2.1-0,  1.1.1-0,  1.0.0-0

Depends:

• _openmp_mutex >=4.5

• bcbio-gff

• bifrost

• biopython

• bzip2 >=1.0.8,<2.0a0

• cd-hit

• diamond >=2.0

• gffutils

• hmmer

• intbitset

• joblib

• libgcc-ng >=12

• libstdcxx-ng >=12

• libzlib >=1.2.13,<1.3.0a0

• mafft

• matplotlib-base

• mkl >=2022.2.1,<2023.0a0

• networkx

• numpy

• pandas

• pthread-stubs

• python >=3.10,<3.11.0a0

• python-edlib

• python-wget

• python_abi 3.10.* *_cp310

• pytorch >=1.12.1,<1.13.0a0

• rapidnj

• scipy

• seaborn

• snp-sites

• tbb >=2021.7.0

• tqdm

• uncertainties

• xorg-libxaw

• xorg-libxcomposite

• xorg-libxcursor

• xorg-libxdamage

• xorg-libxfixes

• xorg-libxi

• xorg-libxinerama

• xorg-libxpm

• xorg-libxrandr

• zlib >=1.2.13,<1.3.0a0

Required By:

Installation

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

conda install ggcaller

and update with:

conda update ggcaller

or use the docker container:

docker pull quay.io/biocontainers/ggcaller:<tag>

(see ggcaller/tags for valid values for <tag>)

Download stats

Link to this page

Render an badge with the following MarkDown:

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