recipe r-garnett

Bioconda-installable version of Garnett cell classification tool.

Homepage:

https://cole-trapnell-lab.github.io/garnett/

Developer docs:

https://github.com/cole-trapnell-lab/garnett

License:

MIT / MIT

Recipe:

/r-garnett/meta.yaml

package r-garnett

Versions:

0.2.8-4,  0.2.8-3,  0.2.8-2,  0.2.8-1,  0.2.8-0,  0.1.4-0

Depends:

• bioconductor-annotationdbi >=1.44.0

• bioconductor-biobase >=2.42.0

• bioconductor-delayedarray >=0.8.0

• bioconductor-delayedmatrixstats >=1.4.0

• bioconductor-org.hs.eg.db >=3.7.0

• bioconductor-org.mm.eg.db

• r-assertthat >=0.2.0

• r-base >=4.2,<4.3.0a0

• r-doparallel >=1.0.14

• r-forcats >=0.3.0

• r-ggplot2 >=3.1.0

• r-ggrepel >=0.8.0

• r-glmnet >=2.0_16

• r-igraph >=1.2.2

• r-irlba >=2.3.2

• r-matrix >=1.2_15

• r-monocle3

• r-plyr >=1.8.4

• r-rann >=2.6

• r-reshape2 >=1.4.3

• r-rly >=1.6.2

• r-stringr >=1.3.1

• r-viridis >=0.5.1

Required By:

• garnett-cli

Installation

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

conda install r-garnett

and update with:

conda update r-garnett

or use the docker container:

docker pull quay.io/biocontainers/r-garnett:<tag>

(see r-garnett/tags for valid values for <tag>)

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