recipe bioconductor-muscat

Multi-sample multi-group scRNA-seq data analysis tools

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-muscat/meta.yaml

`muscat` provides various methods and visualization tools for DS analysis in multi-sample, multi-group, multi-(cell-)subpopulation scRNA-seq data, including cell-level mixed models and methods based on aggregated “pseudobulk” data, as well as a flexible simulation platform that mimics both single and multi-sample scRNA-seq data.

package bioconductor-muscat

Versions:

1.12.0-0,  1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-complexheatmap >=2.14.0,<2.15.0

• bioconductor-deseq2 >=1.38.0,<1.39.0

• bioconductor-edger >=3.40.0,<3.41.0

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-scater >=1.26.0,<1.27.0

• bioconductor-scuttle >=1.8.0,<1.9.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-variancepartition >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-blme

• r-data.table

• r-dplyr

• r-ggplot2

• r-glmmtmb

• r-lme4

• r-lmertest

• r-matrix

• r-matrixstats

• r-progress

• r-purrr

• r-scales

• r-sctransform

• r-viridis

Required By:

Installation

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

conda install bioconductor-muscat

and update with:

conda update bioconductor-muscat

or use the docker container:

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

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

Download stats

Link to this page

Render an badge with the following MarkDown:

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