recipe bioconductor-celda

CEllular Latent Dirichlet Allocation

Homepage

https://bioconductor.org/packages/3.14/bioc/html/celda.html

License

MIT + file LICENSE

Recipe

/bioconductor-celda/meta.yaml

Celda is a suite of Bayesian hierarchical models for clustering single-cell RNA-sequencing (scRNA-seq) data. It is able to perform "bi-clustering" and simultaneously cluster genes into gene modules and cells into cell subpopulations. It also contains DecontX, a novel Bayesian method to computationally estimate and remove RNA contamination in individual cells without empty droplet information. A variety of scRNA-seq data visualization functions is also included.

package bioconductor-celda

Versions

1.10.0-1,  1.10.0-0,  1.8.1-0,  1.6.1-1,  1.6.1-0,  1.4.5-0,  1.2.0-0,  1.0.4-0

Depends

• bioconductor-complexheatmap >=2.10.0,<2.11.0

• bioconductor-delayedarray >=0.20.0,<0.21.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-scater >=1.22.0,<1.23.0

• bioconductor-scran >=1.22.0,<1.23.0

• bioconductor-singlecellexperiment >=1.16.0,<1.17.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=10.3.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=10.3.0

• r-base >=4.1,<4.2.0a0

• r-circlize

• r-data.table

• r-dbscan

• r-digest

• r-doparallel

• r-enrichr

• r-foreach

• r-ggplot2

• r-ggrepel

• r-gtable

• r-matrix

• r-matrixstats

• r-mcmcprecision

• r-multipanelfigure

• r-plyr

• r-rcolorbrewer

• r-rcpp

• r-rcppeigen

• r-reshape2

• r-rtsne

• r-scales

• r-stringr

• r-uwot

• r-withr

Required By

• bioconductor-singlecelltk

Installation

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

conda install bioconductor-celda

and update with:

conda update bioconductor-celda

or use the docker container:

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

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

Download stats

Link to this page

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