recipe bioconductor-scbubbletree

Quantitative visual exploration of scRNA-seq data

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/scBubbletree.html

License:

GPL-3 + file LICENSE

Recipe:

/bioconductor-scbubbletree/meta.yaml

scBubbletree is a quantitative method for the visual exploration of scRNA-seq data, preserving key biological properties such as local and global cell distances and cell density distributions across samples. It effectively resolves overplotting and enables the visualization of diverse cell attributes from multiomic single-cell experiments. Additionally, scBubbletree is user-friendly and integrates seamlessly with popular scRNA-seq analysis tools, facilitating comprehensive and intuitive data interpretation.

package bioconductor-scbubbletree

versions:

1.8.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-0

depends bioconductor-biocparallel:

>=1.40.0,<1.41.0

depends bioconductor-ggtree:

>=3.14.0,<3.15.0

depends r-ape:

depends r-base:

>=4.4,<4.5.0a0

depends r-dplyr:

depends r-ggplot2:

depends r-patchwork:

depends r-proxy:

depends r-reshape2:

depends r-scales:

depends r-seurat:

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 bioconductor-scbubbletree

and update with::

   mamba update bioconductor-scbubbletree

To create a new environment, run:

mamba create --name myenvname bioconductor-scbubbletree

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/bioconductor-scbubbletree:<tag>

(see `bioconductor-scbubbletree/tags`_ for valid values for ``<tag>``)

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/bioconductor-scbubbletree/README.html)