Rebuild the preprocessing object from a .nadia file

Returns an object indistinguishable from what the preprocess_*() function that wrote the file produced – Spectronaut, DIA-NN, TMT or label-free – so it can be fed straight to process_proteomics() or to the table functions.

Usage

nadia_preprocessing(db)

Arguments

db

A nadia_db from read_nadia().

Value

A proteomics_data object with metadata, protein_id and protein_quant.

See also

read_nadia(), nadia_result()

Examples

if (requireNamespace("duckdb", quietly = TRUE)) {
    data(nadia_dia)
    f <- file.path(tempdir(), "pre.nadia")
    write_nadia(f, nadia_dia, verbose = FALSE)

    pre <- nadia_preprocessing(read_nadia(f))
    identical(pre$protein_id, nadia_dia$protein_id)

    unlink(f)
}