tile_ranges {plyranges} | R Documentation |
Slide or tile over a Ranges object
tile_ranges(x, width) slide_ranges(x, width, step)
x |
a Ranges object |
width |
the maximum width of each window/tile (integer vector of length 1) |
step |
the distance between start position of each sliding window (integer vector of length 1) |
The tile_ranges()
function paritions a Ranges object x
by the given the
width
over all ranges in x
, truncated by the sequence end.
The slide_ranges()
function makes sliding windows within each range of x
of size width
and sliding by step
.
Both slide_ranges()
and tile_ranges()
return a new Ranges object
with a metadata column called "partition" which contains the index of the
input range x
that a parition belongs to.
a Ranges object
IRanges::tile()
, GenomicRanges::tile()
IRanges::slidingWindows()
, GenomicRanges::slidingWindows()
gr <- data.frame(seqnames = c("chr1", rep("chr2", 3), rep("chr1", 2), rep("chr3", 4)), start = 1:10, end = 11, strand = c("-", rep("+", 2), rep("*", 2), rep("+", 3), rep("-", 2))) %>% as_granges() %>% set_genome_info(seqlengths = c(11,12,13)) # partition ranges into subranges of width 2, odd width ranges # will have one subrange of width 1 tile_ranges(gr, width = 2) # make sliding windows of width 3, moving window with step size of 2 slide_ranges(gr, width = 3, step = 2)