Skip to contents

Proportion of Sediment-sensitive Invertebrates (PSI)

Source: R/calc-psi.R
calc_psi.Rd

A sediment-sensitive macro-invertebrate metric that provides a proxy to describe the extent to which the surface of river bed are composed, or covered by sediments. It can be calculated at Taxonomic Levels 3, 4 & 5

Usage

calc_psi(
  data,
  names = macroinvertebrateMetrics::column_attributes$name,
  questions = c("Taxon abundance", "Taxon Abundance"),
  taxa_list = "TL3",
  log_abundance = TRUE,
  metric_cols = macroinvertebrateMetrics::metric_cols
)

Arguments

data

Dataframe with at least three columns itemsample_id - unique idenftier for each sample itemlabel - Taxon name that matches to macroinvertebrateTaxa dataset itemresponse - Log abundance category

taxa_list

The taxonomic level the sample(s) have been identified at according to specificed taxa lists as described in WFD100 Further Development of River Invertebrate Classification Tool. Either "TL3" - Taxa list 3, "TL4" - Taxa list 4 or "TL5" - Taxa list 5.

Value

Dataframe with itemsample_id

itemparmaeter

itemquestion

itemresponse

References

Extence, Chris & Chadd, Richard & England, Judy & Dunbar, M.J. & Wood, Paul & Taylor, E.D.. (2010). The Assessment of Fine Sediment Accumulation in Rivers Using Macro-Invertebrate Community Response. River Research and Applications. 29. 10.1002/rra.1569.

Examples

sample <- demo_data
calc_psi(data = sample, taxa_list = "TL3")
#> # A tibble: 144 × 5
#>    sample_id parameter_long                          parameter question response
#>    <chr>     <chr>                                   <chr>     <chr>    <chr>   
#>  1 1017980   Proportion of Sediment-sensitive Inver… METRIC P… PSI Sco… 71.4285…
#>  2 1017980   Proportion of Sediment-sensitive Inver… METRIC P… PSI Con… Slightl…
#>  3 1101214   Proportion of Sediment-sensitive Inver… METRIC P… PSI Sco… 70      
#>  4 1101214   Proportion of Sediment-sensitive Inver… METRIC P… PSI Con… Slightl…
#>  5 1250462   Proportion of Sediment-sensitive Inver… METRIC P… PSI Sco… 66.6666…
#>  6 1250462   Proportion of Sediment-sensitive Inver… METRIC P… PSI Con… Slightl…
#>  7 1419451   Proportion of Sediment-sensitive Inver… METRIC P… PSI Sco… 62.5    
#>  8 1419451   Proportion of Sediment-sensitive Inver… METRIC P… PSI Con… Slightl…
#>  9 1457665   Proportion of Sediment-sensitive Inver… METRIC P… PSI Sco… 75      
#> 10 1457665   Proportion of Sediment-sensitive Inver… METRIC P… PSI Con… Slightl…
#> # ℹ 134 more rows