recipe bioconductor-scgps

A complete analysis of single cell subpopulations, from identifying subpopulations to analysing their relationship (scGPS = single cell Global Predictions of Subpopulation)

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-scgps/meta.yaml

The package implements two main algorithms to answer two key questions: a SCORE (Stable Clustering at Optimal REsolution) to find subpopulations, followed by scGPS to investigate the relationships between subpopulations.

package bioconductor-scgps

Versions:

1.12.0-0,  1.8.0-2,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-deseq2 >=1.38.0,<1.39.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• 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-caret >=6.0

• r-dplyr

• r-dynamictreecut

• r-fastcluster

• r-ggplot2 >=2.2.1

• r-glmnet >2.0

• r-locfit

• r-rcpp

• r-rcpparmadillo

• r-rcppparallel

Required By:

Installation

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

conda install bioconductor-scgps

and update with:

conda update bioconductor-scgps

or use the docker container:

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

(see bioconductor-scgps/tags for valid values for <tag>)

Download stats

Link to this page

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