Table of Top Genes from Linear Model Fit — topTable • variancePartition

topTable generic

topTable generic MArrayLM

topTable generic MArrayLM2

Usage

topTable(
  fit,
  coef = NULL,
  number = 10,
  genelist = fit$genes,
  adjust.method = "BH",
  sort.by = "B",
  resort.by = NULL,
  p.value = 1,
  lfc = 0,
  confint = FALSE
)

# S4 method for class 'MArrayLM'
topTable(
  fit,
  coef = NULL,
  number = 10,
  genelist = fit$genes,
  adjust.method = "BH",
  sort.by = "p",
  resort.by = NULL,
  p.value = 1,
  lfc = 0,
  confint = FALSE
)

# S4 method for class 'MArrayLM2'
topTable(
  fit,
  coef = NULL,
  number = 10,
  genelist = fit$genes,
  adjust.method = "BH",
  sort.by = "p",
  resort.by = NULL,
  p.value = 1,
  lfc = 0,
  confint = FALSE
)

Arguments

fit: fit
coef: coef
number: number
genelist: genelist
adjust.method: adjust.method
sort.by: sort.by
resort.by: resort.by
p.value: p.value
lfc: lfc
confint: confint

Value

results of toptable