recipe monocle3-cli

A set of wrappers for individual components of the monocle3 package. Functions R packages are hard to call when building workflows outside of R, so this package adds a set of simple wrappers with robust argument parsing. Intermediate steps are currently monocle3 R objects, but the ultimate objective is to have language-agnostic intermediate formats allowing composite workflows using a variety of software packages.

Homepage

https://github.com/ebi-gene-expression-group/monocle-scripts

License

Apache / Apache-2.0

Recipe

/monocle3-cli/meta.yaml

package monocle3-cli

Versions

0.0.4-0, 0.0.3-1, 0.0.3-0

Depends

• bioconductor-delayedarray

• bioconductor-delayedmatrixstats

• bioconductor-limma

• bioconductor-singlecellexperiment

• libgcc-ng >=7.3.0

• libstdcxx-ng >=7.3.0

• louvain

• python >=3.7,<3.8.0a0

• r-assertthat

• r-base >=3.6,<3.7.0a0

• r-base64enc

• r-codetools

• r-crosstalk

• r-data.table

• r-devtools

• r-dplyr

• r-ggplot2

• r-ggrepel

• r-grr

• r-hexbin

• r-htmlwidgets

• r-igraph

• r-irlba

• r-lmtest

• r-matrix

• r-matrix.utils

• r-monocle3 >=0.1.2

• r-optparse

• r-pbapply

• r-pbmcapply

• r-pheatmap

• r-plotly

• r-proxy

• r-pryr

• r-pscl

• r-purrr

• r-rann

• r-reshape2

• r-reticulate

• r-rhpcblasctl

• r-rtsne

• r-shiny

• r-slam

• r-spdep

• r-speedglm

• r-stringr

• r-tidyr

• r-uwot

• r-vgam

• r-viridis

• umap-learn

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install monocle3-cli

and update with:

conda update monocle3-cli

or use the docker container:

docker pull quay.io/biocontainers/monocle3-cli:<tag>

(see monocle3-cli/tags for valid values for <tag>)

Link to this page

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