approxk2d: approxk2d

In viper: Virtual Inference of Protein-activity by Enriched Regulon analysis

Description

This function uses a gaussian kernel to estimate the joint density distribution at the specified points

Usage

approxk2d(x, gridsize = 128, pos = x)

Arguments

x	Matrix of x and y points
gridsize	number or vector indicating the size of the greed where to estimate the density
pos	Matrix of coordinates to evaluate the density

Value

Vector of density estimates

Examples

x <- rnorm(500)
y <- x+rnorm(500)
kde2 <- approxk2d(cbind(x, y))
plot(x, y, pch=20, col=hsv(0, kde2/max(kde2), 1))

Example output

Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, basename, cbind, colMeans, colSums, colnames,
    dirname, do.call, duplicated, eval, evalq, get, grep, grepl,
    intersect, is.unsorted, lapply, lengths, mapply, match, mget,
    order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind,
    rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply,
    union, unique, unsplit, which, which.max, which.min

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    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

viper documentation built on Nov. 8, 2020, 7:37 p.m.