Find all positions of all matches of one vector of values in second vector

This should work:

which(hay %in% needles) # 2 3 5

R already has the the match() function / %in% operator, which are the same thing, and they're vectorized. Your solution:

which(!is.na(match(hay, needles)))
[1] 2 3 5

or the shorter syntax which(hay %in% needles) as @jalapic showed.

With match(), if you wanted to, you could see which specific value was matched at each position...

match(hay, needles)
[1] NA  2  1 NA  2 NA

or just a logical vector of where the matches occurred:

!is.na(match(hay, needles))
[1] FALSE  TRUE  TRUE FALSE  TRUE FALSE