createConsensus: Consensus Sequence
In strataG: Summaries and Population Structure Analyses of Genetic Data

Description Usage Arguments Value Author(s) Examples

View source: R/createConsensus.R

Return a consensus sequence from set of aligned sequences, introducing IUPAC ambiguity codes where necessary.

1	createConsensus(x, ignore.gaps = FALSE, simplify = TRUE)

`x`	a gtypes object with aligned sequences or a list of aligned DNA sequences.
`ignore.gaps`	logical. Ignore gaps at a site when creating consensus. If `TRUE`, then bases with a gap are removed before consensus is calculated. If `FALSE` and a gap is present, then the result is a gap.
`simplify`	if there is a single locus, return result in a simplified form? If `FALSE` a list will be returned wth one element per locus.

A character vector of the consensus sequence.

Eric Archer eric.archer@noaa.gov

1 2	data(dolph.seqs) createConsensus(dolph.seqs)

strataG documentation built on Feb. 28, 2020, 9:07 a.m.

strataG index

Package overview README.md Creating and Manipulating gtypes Objects Genotype and sequence summaries Installing External Programs Tests of population structure Working With Sequences

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