select_segreg function

Show markers with/without segregation distortion

A function to shows which marker have segregation distortion if Bonferroni's correction is applied for the Chi-square tests of mendelian segregation.

select_segreg(x, distorted = FALSE, numbers = FALSE, threshold = NULL)

Arguments

• x: an object of class onemap_segreg_test
• distorted: a TRUE/FALSE variable to show distorted or non-distorted markers
• numbers: a TRUE/FALSE variable to show the numbers or the names of the markers
• threshold: a number between 0 and 1 to specify the threshold (alpha) to be considered in the test. If NULL, it uses the threshold alpha = 0.05. Bonferroni correction is applied for multiple test correction.

Returns

a vector with marker names or numbers, according to the option for "distorted" and "numbers"

Examples

# Loads a fake backcross dataset installed with onemap
 data(onemap_example_out)
 # Performs the chi-square test for all markers
 Chi <- test_segregation(onemap_example_out)
 # To show non-distorted markers
 select_segreg(Chi)
 # To show markers with segregation distortion
 select_segreg(Chi, distorted=TRUE)
 # To show the numbers of the markers with segregation distortion
 select_segreg(Chi, distorted=TRUE, numbers=TRUE)