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Identify intervals in a genome not covered by a query.

Source: R/bed_complement.r
bed_complement.Rd

Identify intervals in a genome not covered by a query.

Usage

bed_complement(x, genome)

Arguments

x

ivl_df

genome

ivl_df

Value

ivl_df

See also

Other single set operations: bed_cluster(), bed_flank(), bed_genomecov(), bed_merge(), bed_partition(), bed_shift(), bed_slop()

Examples

x <- tibble::tribble(
  ~chrom, ~start, ~end,
  "chr1", 0,      10,
  "chr1", 75,     100
)

genome <- tibble::tribble(
  ~chrom, ~size,
  "chr1", 200
)

bed_glyph(bed_complement(x, genome))


genome <- tibble::tribble(
  ~chrom,  ~size,
  "chr1",  500,
  "chr2",  600,
  "chr3",  800
)

x <- tibble::tribble(
  ~chrom, ~start, ~end,
  "chr1", 100,    300,
  "chr1", 200,    400,
  "chr2", 0,      100,
  "chr2", 200,    400,
  "chr3", 500,    600
)

# intervals not covered by x
bed_complement(x, genome)
#> # A tibble: 6 × 3
#>   chrom start   end
#>   <chr> <dbl> <dbl>
#> 1 chr1      0   100
#> 2 chr1    400   500
#> 3 chr2    100   200
#> 4 chr2    400   600
#> 5 chr3      0   500
#> 6 chr3    600   800