- recipe bioconductor-nnsvg
Scalable identification of spatially variable genes in spatially-resolved transcriptomics data
- Homepage:
- License:
MIT + file LICENSE
- Recipe:
Method for scalable identification of spatially variable genes (SVGs) in spatially-resolved transcriptomics data. The method is based on nearest-neighbor Gaussian processes and uses the BRISC algorithm for model fitting and parameter estimation. Allows identification and ranking of SVGs with flexible length scales across a tissue slide or within spatial domains defined by covariates. Scales linearly with the number of spatial locations and can be applied to datasets containing thousands or more spatial locations.
- package bioconductor-nnsvg¶
-
- Versions:
1.2.0-0
- Depends:
bioconductor-biocparallel
>=1.32.0,<1.33.0
bioconductor-singlecellexperiment
>=1.20.0,<1.21.0
bioconductor-spatialexperiment
>=1.8.0,<1.9.0
bioconductor-summarizedexperiment
>=1.28.0,<1.29.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-nnsvg
and update with:
conda update bioconductor-nnsvg
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-nnsvg:<tag>
(see bioconductor-nnsvg/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-nnsvg/README.html)