runBumphunter {MEAL} | R Documentation |
Run bumphunter
runBumphunter( set, model, coefficient = 2, bumphunter_cutoff = 0.1, num_permutations = 0, bumps_max = 30000, betas = TRUE, check_perms = FALSE, verbose = FALSE, resultSet = FALSE, ... )
set |
|
model |
Model matrix or formula to get model matrix from |
coefficient |
Numeric with the column of model matrix used in the analysis. (Default: 2) |
bumphunter_cutoff |
Numeric with the minimum cutoff to include a probe in a block. (Default: 0.1) |
num_permutations |
Numeric with the number of permutations run to compute the bumps p-value. (Default: 0) |
bumps_max |
Numeric with the maximum number of bumps used in the permutation.
This parameter only applies when |
betas |
If |
check_perms |
Logical. Should we check that there are less bumps than
|
verbose |
Logical value. Should the function be verbose? (Default: FALSE) |
resultSet |
Should results be encapsulated in a |
... |
Further arguments passed to |
This function has been deprecated and will be defunct in the new version.
data.frame or resultSet
with the result of bumphunter