load_fasta: load_fasta
In gtonkinhill/rhierbaps: Clustering Genetic Sequence Data Using the HierBAPS Algorithm
Description
Usage
Arguments
Value
Examples
Description
Loads a fasta file into matrix format ready for
running the hierBAPS algorithm.
Usage
1
load_fasta(msa, keep.singletons = FALSE)
Arguments
msa
Either the location of a fasta file or ape DNAbin object containing the multiple sequence alignment data to be clustered
keep.singletons
A logical indicating whether to consider singleton mutations in calculating the clusters
Value
A character matrix with filtered SNP data
Examples
1
2
msa <- system.file("extdata", "seqs.fa", package = "rhierbaps")
snp.matrix <- load_fasta(msa)
gtonkinhill/rhierbaps documentation built on May 3, 2021, 9:04 p.m.
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Description Usage Arguments Value Examples
Description
Loads a fasta file into matrix format ready for running the hierBAPS algorithm.
Usage
1 | load_fasta(msa, keep.singletons = FALSE)
|
Arguments
msa |
Either the location of a fasta file or ape DNAbin object containing the multiple sequence alignment data to be clustered |
keep.singletons |
A logical indicating whether to consider singleton mutations in calculating the clusters |
Value
A character matrix with filtered SNP data
Examples
1 2 | msa <- system.file("extdata", "seqs.fa", package = "rhierbaps")
snp.matrix <- load_fasta(msa)
|
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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