recipe bioconductor-slingshot

Tools for ordering single-cell sequencing

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-slingshot/meta.yaml

Provides functions for inferring continuous, branching lineage structures in low-dimensional data. Slingshot was designed to model developmental trajectories in single-cell RNA sequencing data and serve as a component in an analysis pipeline after dimensionality reduction and clustering. It is flexible enough to handle arbitrarily many branching events and allows for the incorporation of prior knowledge through supervised graph construction.

package bioconductor-slingshot

Versions:

2.6.0-0,  2.2.0-0,  2.0.0-0,  1.8.0-1,  1.8.0-0,  1.6.0-0,  1.4.0-0,  1.2.0-1,  1.0.0-0

Depends:

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-trajectoryutils >=1.6.0,<1.7.0

• r-base >=4.2,<4.3.0a0

• r-igraph

• r-matrixstats

• r-princurve >=2.0.4

Required By:

• bioconductor-traviz

• bioconductor-condiments

• bioconductor-tradeseq

Installation

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

conda install bioconductor-slingshot

and update with:

conda update bioconductor-slingshot

or use the docker container:

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

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

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