recipe bioconductor-tomoseqr

R Package for Analyzing Tomo-seq Data

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/tomoseqr.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-tomoseqr/meta.yaml

`tomoseqr` is an R package for analyzing Tomo-seq data. Tomo-seq is a genome-wide RNA tomography method that combines combining high-throughput RNA sequencing with cryosectioning for spatially resolved transcriptomics. `tomoseqr` reconstructs 3D expression patterns from tomo-seq data and visualizes the reconstructed 3D expression patterns.

package bioconductor-tomoseqr

versions:

1.6.0-0,  1.4.0-0,  1.2.0-0

depends bioconductor-biocfilecache:

>=2.10.0,<2.11.0

depends r-animation:

depends r-base:

>=4.3,<4.4.0a0

depends r-dplyr:

depends r-ggplot2:

depends r-plotly:

depends r-purrr:

depends r-readr:

depends r-shiny:

depends r-stringr:

depends r-tibble:

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 bioconductor-tomoseqr

and update with::

   mamba update bioconductor-tomoseqr

To create a new environment, run:

mamba create --name myenvname bioconductor-tomoseqr

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-tomoseqr:<tag>

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