slop_bed | R Documentation |
Similar to bedtools slop
, this function increases the size of each feature
in a feature file by a user-defined number of bases. Will restrict the
resizing to the size of the chromosome.
slop_bed( x, genome = NULL, slop = 1L, slop_type = c("bp", "frac"), mode = c("both", "left", "right") )
x |
A |
genome |
Specify the reference genome for the BED file. |
slop |
The number of base pairs to slop, or the percentage of the
interval's width (refer to |
slop_type |
If |
mode |
If |
A slopped GRanges
object.
Manual page of bedtools slop
: https://bedtools.readthedocs.io/en/latest/content/tools/slop.html
# Load data tbl <- read_bed(system.file("extdata", "example_merge.bed", package = "bedtorch"), use_gr = FALSE, genome = "hs37-1kg") # Slop by 10 on both ends result <- slop_bed(tbl, slop = 10L, slop_type = "bp", mode = "both") # Slop by 10 only on the right end result <- slop_bed(tbl, slop = 10L, slop_type = "bp", mode = "right") head(result) # Slop by 20% on the left end result <- slop_bed(tbl, slop = 0.2, slop_type = "frac", mode = "left") head(result)
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