The generic function
propTyped is devoted to investigating the
structure of missing data in adegenet objects.
Methods are defined for genind and genpop objects. They can return the proportion of available (i.e. non-missing) data per individual/population, locus, or the combination of both in with case the matrix indicates which entity (individual or population) was typed on which locus.
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a genind and genpop object
a character being "ind","loc", or "both" for genind object and "pop","loc", or "both" for genpop object. It specifies whether proportion of typed data are provided by entity ("ind"/"pop"), by locus ("loc") or both ("both"). See details.
by is set to "both", the result is a matrix of binary data
with entities in rows (individuals or populations) and markers in
columns. The values of the matrix are 1 for typed data, and 0 for NA.
A vector of proportion (when
by equals "ind", "pop", or
"loc"), or a matrix of binary data (when
by equals "both")
Thibaut Jombart [email protected]
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