Scale intensities of features using grouped vast scaling — scale_vast

A variation of scale_vast but uses a group-specific coefficient of variation and therefore requires group information. See scale_vast and the References section for more information.

Usage

scale_vast_grouped(data, group_column = .data$Group)

Arguments

data: A tidy tibble created by read_featuretable.
group_column: Which column should be used for grouping? Usually grouping_column = Group. Uses args_data_masking.

Value

A tibble with vast scaled intensities.

References

R. A. Van Den Berg, H. C. Hoefsloot, J. A. Westerhuis, A. K. Smilde, M. J. Van Der Werf, BMC Genomics 2006, 7, 142, DOI 10.1186/1471-2164-7-142.

Examples

toy_metaboscape %>%
  join_metadata(toy_metaboscape_metadata) %>%
  scale_vast_grouped()
#> # A tibble: 110 × 12
#>      UID Feature      Sample Intensity    RT `m/z` Name  Formula Group Replicate
#>    <int> <chr>        <chr>      <dbl> <dbl> <dbl> <chr> <chr>   <chr>     <int>
#>  1     1 161.10519 D… Sampl…    -4.09   0.45  162. NA    C7H15N… cont…         1
#>  2     2 276.13647 D… Sampl…    -2.24   0.45  277. Octy… C16H22… cont…         1
#>  3     3 304.24023 D… Sampl…    NA      0.55  305. Arac… C20H32… cont…         1
#>  4     4 417.23236 D… Sampl…    -1.23   1     418. NA    NA      cont…         1
#>  5     5 104.10753 D… Sampl…    -1.13   2.84  105. NA    C5H14NO cont…         1
#>  6     6 105.04259 D… Sampl…     1.06   3.33  106. NA    C3H8NO3 cont…         1
#>  7     7 237.09204 D… Sampl…    NA      5.22  238. Keta… C13H16… cont…         1
#>  8     8 745.09111 D… Sampl…    -0.585  6.37  746. NADPH C21H30… cont…         1
#>  9     9 427.02942 D… Sampl…    -2.63   7.08  428. ADP   C10H15… cont…         1
#> 10    10 1284.34904 … Sampl…    NA      8.32 1285. NA    NA      cont…         1
#> # ℹ 100 more rows
#> # ℹ 2 more variables: Batch <int>, Factor <dbl>