recipe hmftools-purple

PURPLE is a purity ploidy estimator for tumor samples.

Homepage:

https://github.com/hartwigmedical/hmftools/tree/master/purple

License:

GPL3 / GPL-3.0-only

Recipe:

/hmftools-purple/meta.yaml

package hmftools-purple

versions:

4.1_beta-3,  4.1_beta-2,  4.1_beta-1,  4.1_beta-0,  4.0.2-0,  4.0.1-0,  4.0-0,  3.7.1-0,  3.6-0, 

4.1_beta-3,  4.1_beta-2,  4.1_beta-1,  4.1_beta-0,  4.0.2-0,  4.0.1-0,  4.0-0,  3.7.1-0,  3.6-0,  3.5-0,  3.4-0,  3.2-0,  3.1-0,  2.54-0,  2.53-1,  2.53-0,  2.52-0,  2.51-1,  2.51-0,  2.50-0,  2.48-0,  2.47-1,  2.47-0,  2.46-0,  2.45-0,  2.44-0,  2.43-0,  2.41-0,  2.40-0,  2.39-0,  2.38-0,  2.37-0,  2.36-0,  2.35-0,  2.34-0,  2.32-0,  2.31-0,  2.25-1,  2.17-1,  2.16-1,  2.16-0,  2.15-0

depends bioconductor-variantannotation:

depends circos:

>=0.69.6

depends openjdk:

>=8,<=21

depends perl-gd:

>=2.76

depends r-cairo:

depends r-cowplot:

depends r-dplyr:

depends r-ggplot2:

depends r-tidyr:

depends xorg-libxtst:

depends zlib:

requirements:

additional platforms:

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 hmftools-purple

and update with::

   mamba update hmftools-purple

To create a new environment, run:

mamba create --name myenvname hmftools-purple

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/hmftools-purple:<tag>

(see `hmftools-purple/tags`_ for valid values for ``<tag>``)

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