Prepare annotations GNPS

Description

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

library("tima")

copy_backbone()
go_to_cache()
prepare_annotations_gnps()
unlink("data", recursive = TRUE)