## ---- echo=FALSE, results="hide", message=FALSE------------------------------- require(knitr) opts_chunk$set(error=FALSE, message=FALSE, warning=FALSE) library(BiocNeighbors) ## ----------------------------------------------------------------------------- nobs <- 10000 ndim <- 20 data <- matrix(runif(nobs*ndim), ncol=ndim) ## ----------------------------------------------------------------------------- fout <- findKNN(data, k=10, BNPARAM=KmknnParam()) head(fout$index) head(fout$distance) ## ----------------------------------------------------------------------------- fout$index[3,] ## ----------------------------------------------------------------------------- fout$distance[3,] ## ----------------------------------------------------------------------------- nquery <- 1000 ndim <- 20 query <- matrix(runif(nquery*ndim), ncol=ndim) ## ----------------------------------------------------------------------------- qout <- queryKNN(data, query, k=5, BNPARAM=KmknnParam()) head(qout$index) head(qout$distance) ## ----------------------------------------------------------------------------- qout$index[3,] ## ----------------------------------------------------------------------------- qout$distance[3,] ## ----------------------------------------------------------------------------- findKNN(data, k=5, subset=3:5) ## ----------------------------------------------------------------------------- names(findKNN(data, k=2, get.distance=FALSE)) ## ----------------------------------------------------------------------------- library(BiocParallel) out <- findKNN(data, k=10, BPPARAM=MulticoreParam(3)) ## ----------------------------------------------------------------------------- pre <- buildIndex(data, BNPARAM=KmknnParam()) out1 <- findKNN(BNINDEX=pre, k=5) out2 <- queryKNN(BNINDEX=pre, query=query, k=2) ## ----------------------------------------------------------------------------- out.m <- findKNN(data, k=5, BNPARAM=KmknnParam(distance="Manhattan")) ## ----------------------------------------------------------------------------- sessionInfo()