recipe bioconductor-simpleseg

A package to perform simple cell segmentation

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-simpleseg/meta.yaml

Image segmentation is the process of identifying the borders of individual objects (in this case cells) within an image. This allows for the features of cells such as marker expression and morphology to be extracted, stored and analysed. simpleSeg provides functionality for user friendly, watershed based segmentation on multiplexed cellular images in R based on the intensity of user specified protein marker channels. simpleSeg can also be used for the normalization of single cell data obtained from multiple images.

package bioconductor-simpleseg

Versions:

1.0.0-0

Depends:

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-cytomapper >=1.10.0,<1.11.0

• bioconductor-ebimage >=4.40.0,<4.41.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-spatstat.geom

• r-terra

Required By:

Installation

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

conda install bioconductor-simpleseg

and update with:

conda update bioconductor-simpleseg

or use the docker container:

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

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