createConsensus: Consensus Sequence
In EricArcher/strataG: Summaries and Population Structure Analyses of Genetic Data
View source: R/createConsensus.R
createConsensus R Documentation
Consensus Sequence
Description
Return a consensus sequence from set of aligned sequences,
introducing IUPAC ambiguity codes where necessary.
Usage
createConsensus(x, ignore.gaps = FALSE, simplify = TRUE)
Arguments
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.
Value
A character vector of the consensus sequence.
Author(s)
Eric Archer eric.archer@noaa.gov
Examples
data(dolph.seqs)
createConsensus(dolph.seqs)
EricArcher/strataG documentation built on Feb. 12, 2023, 4:11 a.m.
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View source: R/createConsensus.R
| createConsensus | R Documentation |
Consensus Sequence
Description
Return a consensus sequence from set of aligned sequences, introducing IUPAC ambiguity codes where necessary.
Usage
createConsensus(x, ignore.gaps = FALSE, simplify = TRUE)
Arguments
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 |
simplify |
if there is a single locus, return result in a simplified
form? If |
Value
A character vector of the consensus sequence.
Author(s)
Eric Archer eric.archer@noaa.gov
Examples
data(dolph.seqs) createConsensus(dolph.seqs)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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