- recipe bioconductor-scbfa
A dimensionality reduction tool using gene detection pattern to mitigate noisy expression profile of scRNA-seq
- Homepage:
- License:
GPL-3 + file LICENSE
- Recipe:
This package is designed to model gene detection pattern of scRNA-seq through a binary factor analysis model. This model allows user to pass into a cell level covariate matrix X and gene level covariate matrix Q to account for nuisance variance(e.g batch effect), and it will output a low dimensional embedding matrix for downstream analysis.
- package bioconductor-scbfa¶
-
- 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-deseq2
>=1.38.0,<1.39.0
bioconductor-singlecellexperiment
>=1.20.0,<1.21.0
bioconductor-summarizedexperiment
>=1.28.0,<1.29.0
bioconductor-zinbwave
>=1.20.0,<1.21.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-scbfa
and update with:
conda update bioconductor-scbfa
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-scbfa:<tag>
(see bioconductor-scbfa/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-scbfa/README.html)