- recipe bioconductor-sccb2
CB2 improves power of cell detection in droplet-based single-cell RNA sequencing data
- Homepage
- License
GPL-3
- Recipe
scCB2 is an R package implementing CB2 for distinguishing real cells from empty droplets in droplet-based single cell RNA-seq experiments (especially for 10x Chromium). It is based on clustering similar barcodes and calculating Monte-Carlo p-value for each cluster to test against background distribution. This cluster-level test outperforms single-barcode-level tests in dealing with low count barcodes and homogeneous sequencing library, while keeping FDR well controlled.
- package bioconductor-sccb2¶
-
- Versions
1.4.0-0
,1.2.0-0
,1.0.0-1
,1.0.0-0
- Depends
bioconductor-dropletutils
>=1.14.0,<1.15.0
bioconductor-edger
>=3.36.0,<3.37.0
bioconductor-rhdf5
>=2.38.0,<2.39.0
bioconductor-singlecellexperiment
>=1.16.0,<1.17.0
bioconductor-summarizedexperiment
>=1.24.0,<1.25.0
r-base
>=4.1,<4.2.0a0
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-sccb2
and update with:
conda update bioconductor-sccb2
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-sccb2:<tag>
(see bioconductor-sccb2/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-sccb2/README.html)