VLF (version 1.1)

separate: Separate Specimen by Species Names

Description

Separates specimen into lists by species names.

Usage

separate(x)

Value

A list containing a matrix of sequences for each species.

Arguments

x

A matrix of sequences, usually reduced sequences containing only VLFs, where the second position of the matrix contains the species name for the specimen.

Author

Taryn B. T. Athey and Paul D. McNicholas

Details

If the argument x needs to be a reduced matrix, it can be calculated using the function VLF.reduced.

Examples

if (FALSE) 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_specimen_VLFcount <- VLF.count.spec(birdSpec.freq, 0.001, 648)
Bird_position_VLFcount <- VLF.count.pos(birdSpec.freq, 0.001, 648)
bird_VLFconvert <- VLF.convert.matrix(birds, birdSpec.freq, 0.001, 648)
bird_VLFnuc <- VLF.nucleotides(bird_VLFconvert, birds, 648)
bird_VLFreduced <- VLF.reduced(bird_VLFnuc, Bird_specimen_VLFcount, 648)
bird_species <- separate(bird_VLFreduced)