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View Code? Open in Web Editor NEW'biotic' package for R: calculates UK freshwater invertebrate biotic indices
'biotic' package for R: calculates UK freshwater invertebrate biotic indices
Add vignette using devtools to detail usage
Needs mixed taxonomic level, so could be problematic, but need to consider how this could be incorporated (perhaps adding species column to table and then subsetting to required level for each index and using unique() to avoid duplication.
Suggestion from Craig Macadam to allow processing of data where abundance is recorded as A-E log abundance categories
Need to re-write data transposition section to take row and column names over correctly - commented out at present so tidy=TRUE flag does not work
Test data with one of composite pair deletes the row, eg. Ancylidae in test_oligo.csv file
Add function to facilitate transfer of data into the biomonitoR package
Add new E-PSI index, Turley et al paper at http://dx.doi.org/10.1016/j.ecolind.2016.05.040
Add family level UK SPEAR index. Definition at https://www.gov.uk/government/uploads/system/uploads/attachment_data/file/291706/scho0508bobx-e-e.pdf
See also rspear code: https://github.com/EDiLD/rspear/blob/master/R/spear.R
Benchmarking with RIVPACS database indicates some scores are under reference values. For example BMWP seems to be missing single 6 and 8 scoring taxa. Under investigation..
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