recipe bioconductor-tidytof

Analyze High-dimensional Cytometry Data Using Tidy Data Principles

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-tidytof/meta.yaml

This package implements an interactive, scientific analysis pipeline for high-dimensional cytometry data built using tidy data principles. It is specifically designed to play well with both the tidyverse and Bioconductor software ecosystems, with functionality for reading/writing data files, data cleaning, preprocessing, clustering, visualization, modeling, and other quality-of-life functions. tidytof implements a "grammar" of high-dimensional cytometry data analysis.

package bioconductor-tidytof

versions:

1.0.0-0

depends bioconductor-flowcore:

>=2.18.0,<2.19.0

depends bioconductor-flowcore:

>=2.18.0,<2.19.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc:

>=13

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx:

>=13

depends r-base:

>=4.4,<4.5.0a0

depends r-doparallel:

depends r-dplyr:

depends r-foreach:

depends r-ggplot2:

depends r-ggraph:

depends r-glmnet:

depends r-purrr:

depends r-rcpp:

depends r-rcpphnsw:

depends r-readr:

depends r-recipes:

depends r-rlang:

depends r-stringr:

depends r-survival:

depends r-tibble:

depends r-tidygraph:

depends r-tidyr:

depends r-tidyselect:

depends r-yardstick:

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-tidytof

and update with::

   mamba update bioconductor-tidytof

To create a new environment, run:

mamba create --name myenvname bioconductor-tidytof

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-tidytof:<tag>

(see `bioconductor-tidytof/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-tidytof/README.html)