recipe bioconductor-scannotatr

Pretrained learning models for cell type prediction on single cell RNA-sequencing data

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-scannotatr/meta.yaml

The package comprises a set of pretrained machine learning models to predict basic immune cell types. This enables all users to quickly get a first annotation of the cell types present in their dataset without requiring prior knowledge. scAnnotatR also allows users to train their own models to predict new cell types based on specific research needs.

package bioconductor-scannotatr

Versions:

1.4.0-0,  1.0.0-0

Depends:

• bioconductor-annotationhub >=3.6.0,<3.7.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-ape

• r-base >=4.2,<4.3.0a0

• r-caret

• r-data.tree

• r-dplyr

• r-e1071

• r-ggplot2

• r-kernlab

• r-proc

• r-rocr

• r-seurat

Required By:

Installation

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

conda install bioconductor-scannotatr

and update with:

conda update bioconductor-scannotatr

or use the docker container:

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

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