View source: R/sequence2gtypes.R
sequence2gtypes | R Documentation |
gtypes
Create a gtypes object from sequence data.
sequence2gtypes(
x,
strata = NULL,
seq.names = NULL,
schemes = NULL,
description = NULL,
other = NULL
)
x |
DNA sequences as a character matrix, a |
strata |
a vector or factor giving stratification for each sequence. If not provided all individuals are assigned to the same stratum (Default). |
seq.names |
names for each set of sequences. If not provided default names are generated. |
schemes |
an optional data.frame of stratification schemes. |
description |
an optional label for the object. |
other |
a list to carry other related information (optional). |
a gtypes object.
Eric Archer eric.archer@noaa.gov
gtypes.initialize, as.matrix.gtypes, as.data.frame.gtypes, gtypes2genind, gtypes2loci, gtypes2phyDat
#--- create a haploid sequence (mtDNA) gtypes object
data(dolph.strata)
data(dolph.seqs)
strata <- dolph.strata$fine
names(strata) <- dolph.strata$ids
dloop.fine <- sequence2gtypes(dolph.seqs, strata, seq.names = "dLoop",
description = "dLoop: fine-scale stratification")
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