Decile.Plot: VLF Decile Plot

In VLF: Frequency Matrix Approach for Assessing Very Low Frequency Variants in Sequence Records

VLF Decile Plot

Description

Creates a plot of VLF distributions summed for each decile segment.

Usage

Decile.Plot(VLF, seqlength)

Arguments

VLF	A list of VLFs in each barcode position. May be a matrix containing vectors of singleton and shared VLFs, or can be a single vector of total VLFs.
seqlength	The length of the sequence. Usually 648 for nucleotide sequences and 216 for amino acid sequences.

Value

A barplot containing the sum of the VLFs for each decile barcode segment.

Author(s)

Taryn B. T. Athey and Paul D. McNicholas

Examples

## Not run: data(birds)
species.names <- birds[,2]
specimen.Number <- nrow(birds)
rownames(birds) <- species.names
Nuc.count <- count.function(birds, specimen.Number, 648)
frequency.matrix <- ffrequency.matrix.function(Nuc.count, 648)
birdSpec.freq <- specimen.frequencies(frequency.matrix, birds, specimen.Number, species.names, 648)
Bird_position_VLFcount <- VLF.count.pos(birdSpec.freq, 0.001, 648)
Decile.Plot(Bird_position_VLFcount, 648)
## End(Not run)

VLF documentation built on Aug. 18, 2022, 5:06 p.m.