recipe rosella

Metagenomic binning pipeline and algorithm using UMAP and HDBSCAN

Homepage:

https://github.com/rhysnewell/rosella.git

License:

GPL3

Recipe:

/rosella/meta.yaml

package rosella

(downloads) docker_rosella

versions:
0.5.5-0,  0.5.4-0,  0.5.3-0,  0.5.2-0,  0.5.1-0,  0.5.0-0,  0.4.2-2,  0.4.2-1,  0.4.2-0, 

0.5.5-0,  0.5.4-0,  0.5.3-0,  0.5.2-0,  0.5.1-0,  0.5.0-0,  0.4.2-2,  0.4.2-1,  0.4.2-0,  0.4.1-2,  0.4.1-1,  0.4.1-0,  0.3.3-0,  0.3.2-0,  0.3.0-0,  0.2.4-0,  0.2.3-0

depends biopython:

>=1.81

depends coverm:

>=0.6.1

depends flight-genome:

>=1.6.0

depends hdbscan:

>=0.8.28

depends imageio:

>=2.31

depends joblib:

>=1.1.0,<=1.3

depends joblib:

>=1.3.0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc:

>=12

depends libstdcxx:

>=12

depends libzlib:

>=1.2.13,<2.0a0

depends matplotlib-base:

>=3.8

depends numba:

>=0.53,<=0.57

depends numpy:

<=1.24

depends openssl:

>=3.3.2,<4.0a0

depends pandas:

>=1.3

depends pebble:

>=5.0

depends pynndescent:

>=0.5.7

depends python:

>=3.8,<=3.10

depends scikit-bio:

>=0.5.7

depends scikit-learn:

>=1.0.2,<=1.1

depends scipy:

<=1.11

depends seaborn:

>=0.12

depends tbb:

>=2021.10.0

depends threadpoolctl:

>=3.2.0

depends tqdm:

>=4.66

depends umap-learn:

>=0.5.3

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 rosella

and update with::

   mamba update rosella

To create a new environment, run:

mamba create --name myenvname rosella

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/rosella:<tag>

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

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Link to this page

Render an install-with-bioconda 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/rosella/README.html)