get_significant_results: From a mash result, get effects that are significant in at...

In Alice-MacQueen/CDBNgenomics: Genomics Using the Cooperative Dry Bean Nursery Dataset

Description

From a mash result, get effects that are significant in at least one condition

Usage

get_significant_results(
  m,
  thresh = 0.05,
  conditions = NULL,
  sig_fn = ashr::get_lfsr
)

Arguments

m	the mash result (from joint or 1by1 analysis)
thresh	indicates the threshold below which to call signals significant
conditions	which conditions to include in check (default to all)
sig_fn	the significance function used to extract significance from mash object; eg could be ashr::get_lfsr or ashr::get_lfdr. (Small values must indicate significant.)

Value

a vector containing the indices of the significant effects, by order of most significant to least

Alice-MacQueen/CDBNgenomics documentation built on Aug. 18, 2020, 4:39 p.m.