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Reading MS-GF+ Results. Generic.

Source: R/read_msgf_data.R
read_msgf_data.Rd

Reading MS-GF+ output from a single directory.

Usage

read_msgf_data(
  path_to_MSGF_results,
  suffix = character(0),
  use_mzIdentML = FALSE
)

Arguments

path_to_MSGF_results

(character) path to directory with MSGF results for all datasets.

suffix

(character) optional file suffix. Either "_msgfplus_syn.txt", "_msgfdb_syn.txt", or "_syn.txt".

use_mzIdentML

(logical) whether to read mzIdentML files into psms data.table slot of the MSnID.

Value

(MSnID) MSnID object

Examples

if (FALSE) {
path_to_MSGF_results <- system.file("extdata/global/msgf_output",
                                    package = "PlexedPiperTestData")
msnid <- read_msgf_data(path_to_MSGF_results)
print(msnid)
head(MSnID::psms(msnid))
}