BiocNeighbors
This is the development version of BiocNeighbors; for the stable release version, see BiocNeighbors.
Nearest Neighbor Detection for Bioconductor Packages
Bioconductor version: Development (3.23)
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, vantage point trees, or an exhaustive search. Approximate searches can be performed using the Annoy or HNSW libraries. Each search can be performed with a variety of different distance metrics, parallelization, and variable numbers of neighbors. Range-based searches (to find all neighbors within a certain distance) are also supported.
Author: Aaron Lun [aut, cre, cph]
Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>
citation("BiocNeighbors")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("BiocNeighbors")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("BiocNeighbors")| Finding neighbors in high-dimensional space | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Classification, Clustering, Software |
| Version | 2.5.3 |
| In Bioconductor since | BioC 3.8 (R-3.5) (7.5 years) |
| License | GPL-3 |
| Depends | |
| Imports | Rcpp, methods |
| System Requirements | C++17 |
| URL |
See More
| Suggests | Matrix, DelayedArray, beachmat, BiocParallel, testthat, BiocStyle, knitr, rmarkdown |
| Linking To | Rcpp, assorthead, beachmat |
| Enhances | |
| Depends On Me | OSCA.workflows, SingleRBook |
| Imports Me | batchelor, bluster, CellMixS, clustSIGNAL, concordexR, cydar, GeDi, imcRtools, lemur, miloR, mumosa, poem, scater, scDblFinder, scider, scMerge, scrapper, SingleR, smoothclust, SpatialFeatureExperiment, SpotSweeper, StabMap, SVP, UCell |
| Suggests Me | ClassifyR, scLANE, TrajectoryUtils, TSCAN |
| Links To Me | scrapper, SingleR |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | BiocNeighbors_2.5.3.tar.gz |
| Windows Binary (x86_64) | BiocNeighbors_2.5.2.zip |
| macOS Binary (x86_64) | BiocNeighbors_2.5.3.tgz |
| macOS Binary (arm64) | BiocNeighbors_2.5.2.tgz |
| macOS Binary (x86_64) | BiocNeighbors_2.5.3.tgz |
| macOS Binary (big-sur-arm64) | BiocNeighbors_2.5.2.tgz |
| macOS Binary (sonoma-arm64) | BiocNeighbors_2.5.3.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/BiocNeighbors |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/BiocNeighbors |
| Bioc Package Browser | https://code.bioconductor.org/browse/BiocNeighbors/ |
| Package Short Url | https://bioconductor.org/packages/BiocNeighbors/ |
| Package Downloads Report | Download Stats |