- recipe bioconductor-scddboost
A compositional model to assess expression changes from single-cell rna-seq data
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/scDDboost.html
- License:
GPL (>= 2)
- Recipe:
scDDboost is an R package to analyze changes in the distribution of single-cell expression data between two experimental conditions. Compared to other methods that assess differential expression, scDDboost benefits uniquely from information conveyed by the clustering of cells into cellular subtypes. Through a novel empirical Bayesian formulation it calculates gene-specific posterior probabilities that the marginal expression distribution is the same (or different) between the two conditions. The implementation in scDDboost treats gene-level expression data within each condition as a mixture of negative binomial distributions.
- package bioconductor-scddboost¶
-
- Versions:
1.0.0-0
- Depends:
bioconductor-biocparallel
>=1.32.0,<1.33.0
bioconductor-ebseq
>=1.38.0,<1.39.0
bioconductor-oscope
>=1.28.0,<1.29.0
bioconductor-singlecellexperiment
>=1.20.0,<1.21.0
bioconductor-summarizedexperiment
>=1.28.0,<1.29.0
libblas
>=3.9.0,<4.0a0
libgcc-ng
>=12
liblapack
>=3.9.0,<4.0a0
libstdcxx-ng
>=12
r-base
>=4.2,<4.3.0a0
r-rcpp
>=0.12.11
r-rcppeigen
>=0.3.2.9.0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-scddboost
and update with:
conda update bioconductor-scddboost
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-scddboost:<tag>
(see bioconductor-scddboost/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-scddboost/README.html)