recipe lsabgc

lsaBGC-Pan - refined workflow for pan-BGC-omic evolutionary investigations.

Homepage:

https://github.com/Kalan-Lab/lsaBGC-Pan

License:

BSD / BSD-3-Clause license

Recipe:

/lsabgc/meta.yaml

package lsabgc

versions:

1.1.2-0,  1.1.1-0,  1.1.0-0,  1.0.9-0,  1.0.7-0,  1.0.6-0,  1.0.5-0,  1.0.4-0,  1.0.3-0, 

1.1.2-0,  1.1.1-0,  1.1.0-0,  1.0.9-0,  1.0.7-0,  1.0.6-0,  1.0.5-0,  1.0.4-0,  1.0.3-0,  1.0.0-0

depends axel:

depends bioconductor-ggtree:

depends biopython:

depends gecco:

0.9.6.*

depends numpy:

depends orthofinder:

2.5.5.*

depends pandas:

depends prodigal:

depends pyrodigal:

depends pyseer:

>=1.3

depends python:

>=3.10

depends r-ape:

depends r-base:

depends r-cowplot:

depends r-data.table:

depends r-dplyr:

depends r-gggenes:

depends r-ggplot2:

depends r-gridextra:

depends r-phytools:

depends r-plyr:

depends scikit-learn:

depends tar:

depends xlsxwriter:

>=3.0.3

depends zol:

>=1.4.12

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install lsabgc

and update with::

   mamba update lsabgc

To create a new environment, run:

mamba create --name myenvname lsabgc

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `lsabgc/tags`_ for valid values for ``<tag>``)

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