Initialize method for MotifDB objects

Initialize method for MotifDB objects

Usage

# S4 method for class 'MotifDB'
initialize(
  .Object,
  mat = matrix(0, 4, 1),
  rc_mat = matrix(0, 4, 1),
  motif_lengths = setNames(as.integer(1), colnames(mat)[1]),
  prior = 0.01,
  spat_factors = matrix(1, nrow = 1, ncol = 1),
  spat_bin_size = 1
)

Arguments

.Object

MotifDB object

mat

Position weight matrix

rc_mat

Reverse complement matrix

motif_lengths

Named vector of motif lengths

prior

Pseudocount prior value

spat_factors

Matrix of spatial factors

spat_bin_size

Size of spatial bins