9_parent_weight.yml

target_default: 9_parent_weight

packages:
  - pah

include:
  - 8_pca_analysis.yml
  
sources:
  - 9_parent_weight/src/summary_table.R
  - 9_parent_weight/src/get_parent_alkyls.R
  
targets:
  9_parent_weight:
    depends:
      - 9_parent_weight/doc/parent_mw_pah.png
      - 9_parent_weight/doc/parent_mw_pah.pdf
      - parent_mw_dat
      - 9_parent_weight/doc/summary_table.csv
      
  parent_mw_dat:
    command: pah_mw_parent(compound_info = samples, sample_column = I("unique_id"), conc_column = I("RESULT"), compound_column = I("PARAM_SYNONYM"), statistic = I("average"), parent_compounds = parents, alkylated_compounds = alkyls, plot = I(FALSE))
   
  parents:
    command: get_parents()
  
  alkyls:
    command: get_alkyls()
    
  9_parent_weight/doc/parent_mw_pah.png:
    command: pah_mw_parent(compound_info = samples, sample_column = I("unique_id"), conc_column = I("RESULT"), compound_column = I("PARAM_SYNONYM"), statistic = I("average"), parent_compounds = parents, alkylated_compounds = alkyls, plot = I(TRUE))
    plot: {width: 6, height: 4, unit: 'in', res: 600}
    
  9_parent_weight/doc/parent_mw_pah.pdf:
    command: pah_mw_parent(compound_info = samples, sample_column = I("unique_id"), conc_column = I("RESULT"), compound_column = I("PARAM_SYNONYM"), statistic = I("average"), parent_compounds = parents, alkylated_compounds = alkyls, plot = I(TRUE))
    plot: {width: 6, height: 4}
    
  9_parent_weight/doc/summary_table.csv:
    command: summary_table(thresholds = threshold_dat, parent_mw = parent_mw_dat, location = target_name)