recipe bioconductor-biocneighbors

Nearest Neighbor Detection for Bioconductor Packages

Homepage

https://bioconductor.org/packages/3.11/bioc/html/BiocNeighbors.html

License

GPL-3

Recipe

/bioconductor-biocneighbors/meta.yaml

Implements exact and approximate methods for nearest neighbor detection, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Exact searches can be performed using the k-means for k-nearest neighbors algorithm or with vantage point trees. Approximate searches can be performed using the Annoy or HNSW libraries. Searching on either Euclidean or Manhattan distances is supported. Parallelization is achieved for all methods by using BiocParallel. Functions are also provided to search for all neighbors within a given distance.

package bioconductor-biocneighbors

Versions

1.6.0-0,  1.4.0-0,  1.2.0-1,  1.0.0-0

Depends

• bioconductor-biocparallel >=1.22.0,<1.23.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.3.0

• liblapack >=3.8.0,<3.9.0a0

• libstdcxx-ng >=7.3.0

• r-base >=4.0,<4.1.0a0

• r-matrix

• r-rcpp

• r-rcppannoy

• r-rcpphnsw

Required By

• bioconductor-scran

• bioconductor-scater

• bioconductor-batchelor

• bioconductor-scdblfinder

• bioconductor-cydar

• bioconductor-singler

• bioconductor-cellmixs

• bioconductor-flowspy

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-biocneighbors

and update with:

conda update bioconductor-biocneighbors

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-biocneighbors:<tag>

(see bioconductor-biocneighbors/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-biocneighbors/README.html)