Sort samples by group and optionally by time.

Sort samples by group and optionally by time.

sortSamples(abundances, groups = c(), time = c(), alphabetical = FALSE)

Arguments

abundances	an abundance matrix with taxa as rows and samples as columns
groups	group membership vector with as many entries as samples
time	optional time vector with as many entries as samples; entries are numeric or characters of numbers
alphabetical	option to order samples by group name in alphabetical order

Value

an index vector with the updated sample order