recipe bioconductor-scdblfinder

scDblFinder

Homepage:

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

License:

GPL-3 + file LICENSE

Recipe:

/bioconductor-scdblfinder/meta.yaml

The scDblFinder package gathers various methods for the detection and handling of doublets/multiplets in single-cell sequencing data (i.e. multiple cells captured within the same droplet or reaction volume). It includes methods formerly found in the scran package, the new fast and comprehensive scDblFinder method, and a reimplementation of the Amulet detection method for single-cell ATAC-seq.

package bioconductor-scdblfinder

Versions:

1.12.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biocneighbors >=1.16.0,<1.17.0

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-biocsingular >=1.14.0,<1.15.0

• bioconductor-bluster >=1.8.0,<1.9.0

• bioconductor-delayedarray >=0.24.0,<0.25.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-scater >=1.26.0,<1.27.0

• bioconductor-scran >=1.26.0,<1.27.0

• bioconductor-scuttle >=1.8.0,<1.9.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-igraph

• r-mass

• r-matrix

• r-xgboost

Required By:

• bioconductor-singlecelltk

Installation

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

conda install bioconductor-scdblfinder

and update with:

conda update bioconductor-scdblfinder

or use the docker container:

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

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