Reshapes a peak table to long format, or to a wide data.frame with the selected peaks alongside sample metadata.
Usage
reshape_peaktable(
x,
peaks,
metadata,
fixed_levels = TRUE,
format = c("long", "wide")
)Arguments
- x
A
peak_tableobject.- peaks
A character vector specifying the peaks to include. If the character vector is named, the names of the vector elements will be used in place of the original peak names.
- metadata
A character vector specifying the metadata fields to include.
- fixed_levels
Logical. Whether to fix factor levels of features in the order provided. Defaults to
TRUE. Ignored whenformat = "wide".- format
Either
"long"(the default), with one row per sample and peak, or"wide", with one row per sample and one column per peak.
Value
A data.frame containing the information for the specified peaks. In
long format it has columns sample, peak, lambda, rt, the response and
any metadata; in wide format, sample, any metadata, then one column per
peak.
See also
Other utility functions:
combine_peaks(),
merge_peaks(),
reshape_chroms()
Examples
data(pk_tab)
reshape_peaktable(pk_tab, peaks = c("V8", "V13"))
#> peak sample lambda rt area
#> 1 V13 119 210 13.76774 37.290324
#> 2 V13 121 210 13.76774 20.284852
#> 3 V13 122 210 13.76774 32.383822
#> 4 V13 458 210 13.76774 43.451017
#> 5 V8 119 210 12.46511 2.909701
#> 6 V8 121 210 12.46511 1.080224
#> 7 V8 122 210 12.46511 1.164881
#> 8 V8 458 210 12.46511 4.284673
reshape_peaktable(pk_tab, peaks = c(a = "V8", b = "V13"), format = "wide")
#> sample a b
#> 1 119 2.909701 37.29032
#> 2 121 1.080224 20.28485
#> 3 122 1.164881 32.38382
#> 4 458 4.284673 43.45102