Given that subsetting works slightly different for a DelayedArray compared to a matrix, is there a good alternative to m[is.na(m)] <- 0 for replacing NA's in  a DelayedArray?

Hi,

I need to think of a more natural/intuitive way to support this but in the mean time you can use the following:

replaceNAs <- function(x, value)
{
    stopifnot(is(x, "DelayedArray"),
              is.vector(value),
              is.atomic(value),
              length(value) == 1L)
    DelayedArray:::register_delayed_op(x,
        function(xx) ifelse(is.na(xx), value, xx)
    )
}

Then:

library(DelayedArray)
A <- DelayedArray(matrix(c(NA, 1:10, NA), ncol=3))

A
# DelayedMatrix object of 4 x 3 integers:
#      [,1] [,2] [,3]
# [1,]   NA    4    8
# [2,]    1    5    9
# [3,]    2    6   10
# [4,]    3    7   NA

replaceNAs(A, 0)
# DelayedMatrix object of 4 x 3 logicals:
#      [,1] [,2] [,3]
# [1,]    0    4    8
# [2,]    1    5    9
# [3,]    2    6   10
# [4,]    3    7    0

Cheers,

H.