- recipe bioconductor-batchelor
Single-Cell Batch Correction Methods
- Homepage
https://bioconductor.org/packages/3.14/bioc/html/batchelor.html
- License
GPL-3
- Recipe
Implements a variety of methods for batch correction of single-cell (RNA sequencing) data. This includes methods based on detecting mutually nearest neighbors, as well as several efficient variants of linear regression of the log-expression values. Functions are also provided to perform global rescaling to remove differences in depth between batches, and to perform a principal components analysis that is robust to differences in the numbers of cells across batches.
- package bioconductor-batchelor¶
-
- Versions
1.10.0-1
,1.10.0-0
,1.8.0-0
,1.6.2-0
,1.6.0-0
,1.4.0-0
,1.2.1-0
,1.0.1-0
- Depends
bioconductor-beachmat
>=2.10.0,<2.11.0
bioconductor-biocgenerics
>=0.40.0,<0.41.0
bioconductor-biocneighbors
>=1.12.0,<1.13.0
bioconductor-biocparallel
>=1.28.0,<1.29.0
bioconductor-biocsingular
>=1.10.0,<1.11.0
bioconductor-delayedarray
>=0.20.0,<0.21.0
bioconductor-delayedmatrixstats
>=1.16.0,<1.17.0
bioconductor-residualmatrix
>=1.4.0,<1.5.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
bioconductor-scaledmatrix
>=1.2.0,<1.3.0
bioconductor-scuttle
>=1.4.0,<1.5.0
bioconductor-singlecellexperiment
>=1.16.0,<1.17.0
bioconductor-summarizedexperiment
>=1.24.0,<1.25.0
libblas
>=3.8.0,<4.0a0
libgcc-ng
>=10.3.0
liblapack
>=3.8.0,<4.0a0
libstdcxx-ng
>=10.3.0
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-batchelor
and update with:
conda update bioconductor-batchelor
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-batchelor:<tag>
(see bioconductor-batchelor/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-batchelor/README.html)