invertMap {affxparser} | R Documentation |
Inverts a read or a write map.
invertMap(map, ...)
map |
|
... |
Not used. |
An map is defined to be a vector
of n with unique finite
values in [1,n]. Finding the inverse of a map is the same as
finding the rank of each element, cf. order
(). However,
this method is much faster, because it utilizes the fact that all
values are unique and in [1,n]. Moreover, for any map it holds
that taking the inverse twice will result in the same map.
Henrik Bengtsson
To generate an optimized write map for a CDF file, see
readCdfUnitsWriteMap
().
set.seed(1) # Simulate a read map for a chip with 1.2 million cells nbrOfCells <- 1200000 readMap <- sample(nbrOfCells) # Get the corresponding write map writeMap <- invertMap(readMap) # A map inverted twice should be equal itself stopifnot(identical(invertMap(writeMap), readMap)) # Another example illustrating that the write map is the # inverse of the read map idx <- sample(nbrOfCells, size=1000) stopifnot(identical(writeMap[readMap[idx]], idx)) # invertMap() is much faster than order() t1 <- system.time(invertMap(readMap))[3] cat(sprintf("invertMap() : %5.2fs [ 1.00x]\n", t1)) t2 <- system.time(writeMap2 <- sort.list(readMap, na.last=NA, method="quick"))[3] cat(sprintf("'quick sort' : %5.2fs [%5.2fx]\n", t2, t2/t1)) stopifnot(identical(writeMap, writeMap2)) t3 <- system.time(writeMap2 <- order(readMap))[3] cat(sprintf("order() : %5.2fs [%5.2fx]\n", t3, t3/t1)) stopifnot(identical(writeMap, writeMap2)) # Clean up rm(nbrOfCells, idx, readMap, writeMap, writeMap2)