A CoverageExperiment object can be coerced into a tibble using the
tidySummarizedExperiment package, but this will not turn
each coverage matrix into a "long" format. The expand function
provided here allows one to coerce a CoverageExperiment
object into a long data frame, and adds the ranges
and seqnames to the resulting tibble.
Usage
# S3 method for class 'CoverageExperiment'
expand(data, ..., .name_repair = NULL)Examples
data(ce)
ce
#> class: CoverageExperiment
#> dim: 1 2
#> metadata(0):
#> assays(1): coverage
#> rownames(1): Scc1
#> rowData names(2): features n
#> colnames(2): RNA_fwd RNA_rev
#> colData names(1): track
#> width: 3000
expand(ce)
#> # A tibble: 368,400 × 8
#> # Groups: track, features, ranges [1,228]
#> track features chr ranges strand coord coverage coord.scaled
#> <chr> <fct> <chr> <chr> <chr> <dbl> <dbl> <dbl>
#> 1 RNA_fwd Scc1 II II:4290-7289:+ + 4290 -0.257 -1500
#> 2 RNA_fwd Scc1 II II:4290-7289:+ + 4300 -0.257 -1490
#> 3 RNA_fwd Scc1 II II:4290-7289:+ + 4310 -0.257 -1480
#> 4 RNA_fwd Scc1 II II:4290-7289:+ + 4320 -0.257 -1470
#> 5 RNA_fwd Scc1 II II:4290-7289:+ + 4330 -0.257 -1460
#> 6 RNA_fwd Scc1 II II:4290-7289:+ + 4340 -0.257 -1450
#> 7 RNA_fwd Scc1 II II:4290-7289:+ + 4350 -0.257 -1440
#> 8 RNA_fwd Scc1 II II:4290-7289:+ + 4360 -0.257 -1430
#> 9 RNA_fwd Scc1 II II:4290-7289:+ + 4370 -0.257 -1420
#> 10 RNA_fwd Scc1 II II:4290-7289:+ + 4380 -0.257 -1410
#> # ℹ 368,390 more rows