hotspotter: Find hotspots of genomic events
In AneuFinder: Analysis of Copy Number Variation in Single-Cell-Sequencing Data

Description Usage Arguments Details Value Author(s)

Find hotspots of genomic events by using kernel density estimation.

1	hotspotter(breakpoints, bw, pval = 0.05, spacing.bp = 5000)

`breakpoints`	A list with `GRanges-class` object containing the coordinates of the genomic events.
`bw`	Bandwidth used for kernel density estimation (see `density`).
`pval`	P-value cutoff for hotspots.
`spacing.bp`	Spacing of datapoints for KDE in basepairs.

The hotspotter uses density to perform a KDE. A p-value is calculated by comparing the density profile of the genomic events with the density profile of a randomly subsampled set of genomic events (bootstrapping).

A list of GRanges-class objects containing 1) coordinates of hotspots and 2) p-values within the hotspot.

Aaron Taudt

AneuFinder documentation built on Nov. 8, 2020, 7:44 p.m.