Prepare annotations GNPS

This function prepares GNPS obtained annotations

Usage

prepare_annotations_gnps(
  input = get_params(step =
    "prepare_annotations_gnps")$files$annotations$raw$spectral$gnps,
  output = get_params(step =
    "prepare_annotations_gnps")$files$annotations$prepared$structural$gnps,
  str_stereo = get_params(step =
    "prepare_annotations_gnps")$files$libraries$sop$merged$structures$stereo,
  str_met = get_params(step =
    "prepare_annotations_gnps")$files$libraries$sop$merged$structures$metadata,
  str_nam = get_params(step =
    "prepare_annotations_gnps")$files$libraries$sop$merged$structures$names,
  str_tax_cla = get_params(step =
    "prepare_annotations_gnps")$files$libraries$sop$merged$structures$taxonomies$cla,
  str_tax_npc = get_params(step =
    "prepare_annotations_gnps")$files$libraries$sop$merged$structures$taxonomies$npc
)

Arguments

input

Input file

output

Output file

str_stereo

File containing structures stereo

str_met

File containing structures metadata

str_nam

File containing structures names

str_tax_cla

File containing Classyfire taxonomy

str_tax_npc

File containing NPClassifier taxonomy

Value

The path to the prepared GNPS annotations

Examples

if (FALSE) { # \dontrun{
tima:::copy_backbone()
go_to_cache()
prepare_annotations_gnps()
unlink("data", recursive = TRUE)
} # }