recipe bioconductor-flowworkspace

Infrastructure for representing and interacting with gated and ungated cytometry data sets.

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/flowWorkspace.html

License:

AGPL-3.0-only

Recipe:

/bioconductor-flowworkspace/meta.yaml

Links:

biotools: flowworkspace, doi: 10.1186/1471-2105-13-252

This package is designed to facilitate comparison of automated gating methods against manual gating done in flowJo. This package allows you to import basic flowJo workspaces into BioConductor and replicate the gating from flowJo using the flowCore functionality. Gating hierarchies, groups of samples, compensation, and transformation are performed so that the output matches the flowJo analysis.

package bioconductor-flowworkspace

Versions:

4.10.0-0,  4.6.0-2,  4.6.0-1,  4.6.0-0,  4.4.0-0,  4.2.0-2,  4.2.0-1,  4.2.0-0,  4.0.1-0, 

4.10.0-0,  4.6.0-2,  4.6.0-1,  4.6.0-0,  4.4.0-0,  4.2.0-2,  4.2.0-1,  4.2.0-0,  4.0.1-0,  3.34.0-0,  3.32.0-1,  3.30.2-0,  3.30.1-0,  3.28.2-0,  3.26.2-0,  3.24.4-0

Depends:

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-cytolib >=2.10.0,<2.11.0

• bioconductor-delayedarray >=0.24.0,<0.25.0

• bioconductor-flowcore >=2.10.0,<2.11.0

• bioconductor-graph >=1.76.0,<1.77.0

• bioconductor-ncdfflow >=2.44.0,<2.45.0

• bioconductor-rbgl >=1.74.0,<1.75.0

• bioconductor-rgraphviz >=2.42.0,<2.43.0

• bioconductor-rhdf5lib >=1.20.0,<1.21.0

• bioconductor-rprotobuflib >=2.10.0,<2.11.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-bh >=1.62.0-1

• r-cpp11

• r-data.table

• r-dplyr

• r-ggplot2

• r-matrixstats

• r-scales

• r-xml

Required By:

• bioconductor-ggcyto

• bioconductor-peacoqc

• bioconductor-immunespacer

• r-autospill

• bioconductor-flowdensity

• bioconductor-flowstats

• bioconductor-opencyto

• bioconductor-cytoml

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-flowworkspace

and update with:

conda update bioconductor-flowworkspace

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-flowworkspace:<tag>

(see bioconductor-flowworkspace/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-flowworkspace/README.html)