Skip to contents

Weight chemo

Source: R/weight_chemo.R
weight_chemo.Rd

This function weights the biologically weighted annotations according their chemical consistency

Usage

weight_chemo(
  annot_table_wei_bio_clean = get("annot_table_wei_bio_clean", envir = parent.frame()),
  weight_spectral = get("weight_spectral", envir = parent.frame()),
  weight_biological = get("weight_biological", envir = parent.frame()),
  weight_chemical = get("weight_chemical", envir = parent.frame()),
  score_chemical_cla_kingdom = get("score_chemical_cla_kingdom", envir = parent.frame()),
  score_chemical_cla_superclass = get("score_chemical_cla_superclass", envir =
    parent.frame()),
  score_chemical_cla_class = get("score_chemical_cla_class", envir = parent.frame()),
  score_chemical_cla_parent = get("score_chemical_cla_parent", envir = parent.frame()),
  score_chemical_npc_pathway = get("score_chemical_npc_pathway", envir = parent.frame()),
  score_chemical_npc_superclass = get("score_chemical_npc_superclass", envir =
    parent.frame()),
  score_chemical_npc_class = get("score_chemical_npc_class", envir = parent.frame())
)

Arguments

annot_table_wei_bio_clean

Table containing the biologically weighted annotation

weight_spectral

Weight for the spectral score

weight_biological

Weight for the biological score

weight_chemical

Weight for the chemical consistency score

score_chemical_cla_kingdom

Score for a Classyfire kingdom match (should be lower than Classyfire superclass)

score_chemical_cla_superclass

Score for a Classyfire superclass match (should be lower than Classyfire class)

score_chemical_cla_class

Score for a Classyfire class match (should be lower than Classyfire parent)

score_chemical_cla_parent

Score for a Classyfire parent match (should be the highest)

score_chemical_npc_pathway

Score for a pathway match (should be lower than superclass)

score_chemical_npc_superclass

Score for a superclass match (should be lower than class)

score_chemical_npc_class

Score for a class match (should be the highest)

Value

A table containing the chemically weighted annotation

Examples

NULL
#> NULL