long_to_matrix: Long to wide data format conversion
In proBatch: Tools for Diagnostics and Corrections of Batch Effects in Proteomics

Description Usage Arguments Value See Also Examples

Convert from a long data frame representation to a wide matrix representation

long_to_matrix(
  df_long,
  feature_id_col = "peptide_group_label",
  measure_col = "Intensity",
  sample_id_col = "FullRunName",
  qual_col = NULL,
  qual_value = 2
)

`df_long`	data frame where each row is a single feature in a single sample. It minimally has a `sample_id_col`, a `feature_id_col` and a `measure_col`, but usually also an `m_score` (in OpenSWATH output result file). See `help("example_proteome")` for more details.
`feature_id_col`	name of the column with feature/gene/peptide/protein ID used in the long format representation `df_long`. In the wide formatted representation `data_matrix` this corresponds to the row names.
`measure_col`	if `df_long` is among the parameters, it is the column with expression/abundance/intensity; otherwise, it is used internally for consistency.
`sample_id_col`	name of the column in `sample_annotation` table, where the filenames (colnames of the `data_matrix` are found).
`qual_col`	column to color point by certain value denoted by `color_by_qual_value`. Design with inferred/requant values in OpenSWATH output data, which means argument value has to be set to `m_score`.
`qual_value`	value in `qual_col` to color. For OpenSWATH data, this argument value has to be set to `2` (this is an `m_score` value for imputed values (requant values).