recipe bioconductor-slalom

Factorial Latent Variable Modeling of Single-Cell RNA-Seq Data

Homepage:

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

License:

GPL-2

Recipe:

/bioconductor-slalom/meta.yaml

slalom is a scalable modelling framework for single-cell RNA-seq data that uses gene set annotations to dissect single-cell transcriptome heterogeneity, thereby allowing to identify biological drivers of cell-to-cell variability and model confounding factors. The method uses Bayesian factor analysis with a latent variable model to identify active pathways (selected by the user, e.g. KEGG pathways) that explain variation in a single-cell RNA-seq dataset. This an R/C++ implementation of the f-scLVM Python package. See the publication describing the method at https://doi.org/10.1186/s13059-017-1334-8.

package bioconductor-slalom

(downloads) docker_bioconductor-slalom

Versions:
1.16.0-21.16.0-11.16.0-01.14.0-01.12.0-11.12.0-01.10.0-01.8.0-01.6.0-1

1.16.0-21.16.0-11.16.0-01.14.0-01.12.0-11.12.0-01.10.0-01.8.0-01.6.0-11.4.1-01.4.0-0

Depends:
Required By:

Installation

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

conda install bioconductor-slalom

and update with:

conda update bioconductor-slalom

or use the docker container:

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

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

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