Package Recipe 'hotspot3d'

recipe hotspot3d

This 3D proximity tool can be used to identify mutation hotspots from linear protein sequence and correlate the hotspots with known or potentially interacting domains, mutations, or drugs. Mutation-mutation and mutation-drug clusters can also be identified and viewed.

Homepage:: https://github.com/ding-lab/hotspot3d
License:: GPL / GPLv3
Recipe:: /hotspot3d/meta.yaml

package hotspot3d¶

Versions:

1.8.2-3, 1.8.2-2, 1.8.2-1, 1.8.2-0, 0.6.0-0

Depends:

on perl >=5.32.1,<6.0a0 *_perl5
on perl-archive-extract
on perl-json
on perl-list-moreutils
on perl-lwp-simple >=6.39
on perl-parallel-forkmanager
on perl-test-most

Additional platforms:

Installation¶

You need a conda-compatible package manager (currently either pixi, conda, or micromamba) and the Bioconda channel already activated (see Usage). Below, we show how to install with either pixi or conda (for micromamba and mamba, commands are essentially the same as with conda).

Pixi¶

With pixi installed and the Bioconda channel set up (see Usage), to install globally, run:

pixi global install hotspot3d

to add into an existing workspace instead, run:

pixi add hotspot3d

In the latter case, make sure to first add bioconda and conda-forge to the channels considered by the workspace:

pixi workspace channel add conda-forge
pixi workspace channel add bioconda

Conda¶

With conda installed and the Bioconda channel set up (see Usage), to install into an existing and activated environment, run:

conda install hotspot3d

Alternatively, to install into a new environment, run:

conda create -n envname hotspot3d

with envname being the name of the desired environment.

Container¶

Alternatively, every Bioconda package is available as a container image for usage with your preferred container runtime. For e.g. docker, run:

docker pull quay.io/biocontainers/hotspot3d:<tag>

(see hotspot3d/tags for valid values for <tag>).

Integrated deployment¶

Finally, note that many scientific workflow management systems directly integrate both conda and container based software deployment. Thus, workflow steps can be often directly annotated to use the package, leading to automatic deployment by the respective workflow management system, thereby improving reproducibility and transparency. Check the documentation of your workflow management system to find out about the integration.

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/hotspot3d/README.html)