recipe bioconductor-airpart

Differential cell-type-specific allelic imbalance

Homepage

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

License

GPL-2

Recipe

/bioconductor-airpart/meta.yaml

Airpart identifies sets of genes displaying differential cell-type-specific allelic imbalance across cell types or states, utilizing single-cell allelic counts. It makes use of a generalized fused lasso with binomial observations of allelic counts to partition cell types by their allelic imbalance. Alternatively, a nonparametric method for partitioning cell types is offered. The package includes a number of visualizations and quality control functions for examining single cell allelic imbalance datasets.

package bioconductor-airpart

Versions

1.2.0-0,  1.0.0-0

Depends

• bioconductor-apeglm >=1.16.0,<1.17.0

• bioconductor-complexheatmap >=2.10.0,<2.11.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-scater >=1.22.0,<1.23.0

• bioconductor-singlecellexperiment >=1.16.0,<1.17.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• r-base >=4.1,<4.2.0a0

• r-clue

• r-dplyr

• r-dynamictreecut

• r-emdbook

• r-forestplot

• r-ggplot2

• r-lpsolve

• r-matrixstats

• r-mclust

• r-pbapply

• r-plyr

• r-rcolorbrewer

• r-rlang

• r-smurf

Required By

Installation

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

conda install bioconductor-airpart

and update with:

conda update bioconductor-airpart

or use the docker container:

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

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

Download stats

Link to this page

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