Calculate ancestry proportions in a set of target populations.
Calculate ancestry proportions in a set of target populations.
qpAdm( data, target, sources, outgroups, outdir = NULL, params = list(allsnps = "YES", summary = "YES", details = "YES") )
data |
EIGENSTRAT data object. |
target |
Vector of target populations (evaluated one at a time). |
sources |
Source populations related to true ancestors. |
outgroups |
Outgroup populations. |
outdir |
Where to put all generated files (temporary directory by default). |
params |
Named list of parameters and their values. |
List of three components: 1. estimated ancestry proportions 2. ranks statistics 3. analysis of patterns (all possible subsets of ancestry sources).
## Not run: # download example data set and prepare it for analysis
snps <- eigenstrat(download_data(dirname = tempdir()))
# estimate the proportion of Neandertal ancestry in a French
# individual and other associated qpAdm statistics (see detailed
# description in the tutorial vignette)
result <- qpAdm(
target = "French",
sources = c("Vindija", "Yoruba"),
outgroups = c("Chimp", "Denisova", "Altai"),
data = snps
)
## End(Not run)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.