get.database: gen/database/cohorts conversion

In MoBPS: Modular Breeding Program Simulator

gen/database/cohorts conversion

Description

Function to derive a database based on gen/database/cohorts

Usage

get.database(
  population,
  gen = NULL,
  database = NULL,
  cohorts = NULL,
  avoid.merging = FALSE,
  per.individual = FALSE,
  id = NULL,
  db.names = NULL,
  id.all.copy = FALSE,
  id.last = FALSE,
  keep.order = FALSE,
  class = NULL,
  genotyped = NULL,
  npheno = NULL,
  verbose = TRUE,
  sex.filter = 0
)

Arguments

population	Population list
gen	Quick-insert for database (vector of all generations to export)
database	Groups of individuals to consider for the export
cohorts	Quick-insert for database (vector of names of cohorts to export)
avoid.merging	Set to TRUE to avoid different cohorts to be merged in a joint group when possible
per.individual	Set TRUE to obtain a database with one row per individual instead of concatenating (default: FALSE)
id	Individual IDs to search/collect in the database
db.names	MoPBS internal names (SexNr_Generation)
id.all.copy	Set to TRUE to show all copies of an individual in the database (default: FALSE)
id.last	Set to TRUE to use the last copy of an individual for the database (default: FALSE - pick first copy)
keep.order	To not change order of individuals when ids are provided (default: FALSE)
class	Only include individuals of the following classes in the database (can also be vector with multiple classes; default: ALL)
genotyped	Only include individuals that are genotyped (TRUE) or not-genotyped (FALSE); default: NULL (all individuals)
npheno	Only include individuals with the certain number of phenotypes generated (default: NULL (all individuals))
verbose	Set to FALSE to not display any prints
sex.filter	Set to 1 to only include males and set 2 to only include females in database (default: 0)

Value

Matrix with combined gen/database/cohorts

Examples

data(ex_pop)
get.database(ex_pop, gen=2)

MoBPS documentation built on Nov. 5, 2025, 6:26 p.m.