If your individuals have a consistent naming scheme
(e.g. SPECIES-POPULATION-MATURITY-YEAR-ID = CHI-QUE-ADU-2014-020),
use this function to rapidly create a strata file.
Several functions in radiator and assigner requires
a strata argument, i.e. a data frame with the individuals and
associated groupings. If you have already run
stacks on your data,
the strata file is similar to a stacks `population map file`, make sure you
have the required column names (INDIVIDUALS and STRATA).
individuals2strata(data, strata.start, strata.end, filename = NULL)A file or data frame object with individuals in a column. The
column name is INDIVIDUALS.
(integer) The start of your strata id. See details for more info.
(integer) The end of your strata id. See details for more info.
(optional) The file name for the strata object if you
want to save it in the working directory.
Default: filename = NULL, the starta object is in the global
environment only (i.e. not written in the working directory).
a strata object and file, if requested. The file is tab delimited
with 2 columns named:
INDIVIDUALS and STRATA.
The STRATA column can be any hierarchical grouping.
strata.start and strata.end
The info must be found within the name of your individual sample. If not,
you'll have to create a strata file by hand, the old fashion way.
e.g. if your individuals are identified
in this form : SPECIES-POPULATION-MATURITY-YEAR-ID = CHI-QUE-ADU-2014-020,
then, to have the population id in the STRATA column,
strata.start = 5 and strata.end = 7.
The STRATA column can be any hierarchical grouping.
if (FALSE) {
strata.abalone <- individuals2strata(
data = "individuals.abalone.tsv",
strata.start = 5,
strata.end = 7,
filename = "strata.abalone.tsv"
)
}