Marcus W. Beck, marcusb@sccwrp.org, Raphael D. Mazor, raphaelm@sccwrp.org, Susanna Theroux, susannat@sccwrp.org, Kenneth C. Schiff, kens@sccwrp.org
This package provides functions to calculate a stream quality index using stream data. The index requires biological, chemical, and physical data.
The development version of this package can be installed from Github:
install.packages('devtools')
library(devtools)
install_github('SCCWRP/SQI')
library(SQI)The core function is sqi():
head(sampdat)## # A tibble: 6 x 19
## MasterID yr CSCI ASCI IPI PCT_SAFN H_AqHab H_SubNat Ev_FlowHab
## <chr> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl>
## 1 402M000~ 2015 0.729 0.969 1.07 0.81 1 0.96 0.77
## 2 402M000~ 2015 0.945 1.14 1 0.77 0.73 0.97 0.78
## 3 402M000~ 2015 0.283 1.17 0.95 0.77 0.78 1 0.15
## 4 402M000~ 2016 0.703 0.932 0.98 0.95 0.85 1 0.18
## 5 402M000~ 2016 0.315 0.886 0.93 0.96 0.96 0.93 0.3
## 6 402S095~ 2012 0.948 1.04 1 0.82 0.82 0.93 0.77
## # ... with 10 more variables: XCMG <dbl>, blc <dbl>, bs <dbl>, hy <dbl>,
## # ps <dbl>, indexscore_cram <dbl>, Cond <dbl>, TN <dbl>, TP <dbl>,
## # SiteSet <chr>
sqi(sampdat)## # A tibble: 267 x 28
## MasterID yr CSCI ASCI IPI PCT_SAFN H_AqHab H_SubNat Ev_FlowHab
## <chr> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl>
## 1 402M000~ 2015 0.729 0.969 1.07 0.81 1 0.96 0.77
## 2 402M000~ 2015 0.945 1.14 1 0.77 0.73 0.97 0.78
## 3 402M000~ 2015 0.283 1.17 0.95 0.77 0.78 1 0.15
## 4 402M000~ 2016 0.703 0.932 0.98 0.95 0.85 1 0.18
## 5 402M000~ 2016 0.315 0.886 0.93 0.96 0.96 0.93 0.3
## 6 402S095~ 2012 0.948 1.04 1 0.82 0.82 0.93 0.77
## 7 403BA01~ 2010 0.943 0.953 0.71 0.5 0.59 0.77 0.88
## 8 403M015~ 2016 0.431 0.463 0.41 0.04 0.52 0.290 1
## 9 403M015~ 2015 0.664 0.974 0.96 0.64 0.92 0.85 0.85
## 10 403M015~ 2015 0.761 1.10 0.97 0.77 0.93 0.8 1
## # ... with 257 more rows, and 19 more variables: XCMG <dbl>, blc <dbl>,
## # bs <dbl>, hy <dbl>, ps <dbl>, indexscore_cram <dbl>, Cond <dbl>,
## # TN <dbl>, TP <dbl>, SiteSet <chr>, pChem <dbl>, pHab <dbl>,
## # pChemHab <dbl>, BiologicalCondition <chr>,
## # WaterChemistryCondition <chr>, HabitatCondition <chr>,
## # OverallStressCondition <chr>, OverallStressCondition_detail <chr>,
## # StreamHealthIndex <chr>
Resources: paper
Contact: Raphael Mazor