R/vtrack.R
gvtrack.iterator.RdDefines modification rules for a one-dimensional iterator in a virtual track.
gvtrack.iterator(vtrack = NULL, dim = NULL, sshift = 0, eshift = 0)virtual track name
use 'NULL' or '0' for 1D iterators. '1' converts 2D iterator to (chrom1, start1, end1) , '2' converts 2D iterator to (chrom2, start2, end2)
shift of 'start' coordinate
shift of 'end' coordinate
None.
This function defines modification rules for one-dimensional iterator intervals in a virtual track.
'dim' converts a 2D iterator interval (chrom1, start1, end1, chrom2, start2, end2) to a 1D interval. If 'dim' is '1' the interval is converted to (chrom1, start1, end1). If 'dim' is '2' the interval is converted to (chrom2, start2, end2). If 1D iterator is used 'dim' must be set to 'NULL' or '0' (meaning: no conversion is made).
Iterator interval's 'start' coordinate is modified by adding 'sshift'. Similarly 'end' coordinate is altered by adding 'eshift'.
# \dontshow{
options(gmax.processes = 2)
# }
gdb.init_examples()
gvtrack.create("vtrack1", "dense_track")
gvtrack.iterator("vtrack1", sshift = 200, eshift = 200)
gextract("dense_track", "vtrack1", gintervals(1, 0, 500))
#> chrom start end dense_track vtrack1 intervalID
#> 1 chr1 0 50 0.1777778 0.16 1
#> 2 chr1 50 100 0.1600000 0.20 1
#> 3 chr1 100 150 0.1800000 0.16 1
#> 4 chr1 150 200 0.1600000 0.16 1
#> 5 chr1 200 250 0.1600000 0.16 1
#> 6 chr1 250 300 0.2000000 0.06 1
#> 7 chr1 300 350 0.1600000 0.06 1
#> 8 chr1 350 400 0.1600000 0.02 1
#> 9 chr1 400 450 0.1600000 0.04 1
#> 10 chr1 450 500 0.0600000 0.00 1
gvtrack.create("vtrack2", "dense_track")
gvtrack.iterator("vtrack2", dim = 1)
gextract("vtrack2", gintervals.2d(1, 0, 1000, 1, 0, -1),
iterator = "rects_track"
)
#> NULL