Converts the values of track expression to intervals that match corresponding bin.
gpartition(
expr = NULL,
breaks = NULL,
intervals = NULL,
include.lowest = FALSE,
iterator = NULL,
band = NULL,
intervals.set.out = NULL
)track expression
breaks that determine the bin
genomic scope for which the function is applied
if 'TRUE', the lowest value of the range determined by breaks is included
track expression iterator. If 'NULL' iterator is determined implicitly based on track expression.
track expression band. If 'NULL' no band is used.
intervals set name where the function result is optionally outputted
If 'intervals.set.out' is 'NULL' a set of intervals with an additional column that indicates the corresponding bin index.
This function converts first the values of track expression into 1-based bin's index according 'breaks' argument. It returns then the intervals with the corresponding bin's index.
The range of bins is determined by 'breaks' argument. For example: 'breaks=c(x1, x2, x3, x4)' represents three different intervals (bins): (x1, x2], (x2, x3], (x3, x4].
If 'include.lowest' is 'TRUE' the the lowest value will be included in the first interval, i.e. in [x1, x2].
If 'intervals.set.out' is not 'NULL' the result is saved as an intervals set. Use this parameter if the result size exceeds the limits of the physical memory.
# \dontshow{
options(gmax.processes = 2)
# }
gdb.init_examples()
breaks <- seq(0, 0.2, by = 0.05)
gpartition("dense_track", breaks, gintervals(1, 0, 5000))
#> chrom start end bin
#> 1 chr1 0 250 4
#> 2 chr1 300 450 4
#> 3 chr1 450 550 2
#> 4 chr1 550 650 1
#> 5 chr1 850 1000 1
#> 6 chr1 1000 1050 3
#> 7 chr1 1100 1150 1
#> 8 chr1 1250 1300 1
#> 9 chr1 1300 1350 2
#> 10 chr1 1350 1400 1
#> 11 chr1 1450 1500 1
#> 12 chr1 1500 1550 2
#> 13 chr1 1600 1700 2
#> 14 chr1 1700 1750 1
#> 15 chr1 1850 1950 1
#> 16 chr1 2000 2100 3
#> 17 chr1 2150 2200 1
#> 18 chr1 2250 2300 1
#> 19 chr1 2300 2350 2
#> 20 chr1 2400 2450 3
#> 21 chr1 2500 2550 1
#> 22 chr1 2700 2750 1
#> 23 chr1 2750 2850 2
#> 24 chr1 2850 2900 3
#> 25 chr1 2900 2950 1
#> 26 chr1 2950 3000 2
#> 27 chr1 3000 3050 1
#> 28 chr1 3050 3100 2
#> 29 chr1 3100 3150 1
#> 30 chr1 3200 3250 2
#> 31 chr1 3300 3350 1
#> 32 chr1 3400 3500 1
#> 33 chr1 3500 3550 3
#> 34 chr1 3550 3600 1
#> 35 chr1 3650 3700 1
#> 36 chr1 3700 3800 2
#> 37 chr1 3850 3950 1
#> 38 chr1 3950 4000 3
#> 39 chr1 4000 4050 1
#> 40 chr1 4050 4100 2
#> 41 chr1 4100 4200 1
#> 42 chr1 4250 4350 2
#> 43 chr1 4350 4500 1
#> 44 chr1 4500 4550 2
#> 45 chr1 4600 4650 1
#> 46 chr1 4700 4750 3
#> 47 chr1 4750 4800 4
#> 48 chr1 4850 4900 1
#> 49 chr1 4900 4950 2