Description Usage Arguments Value Examples
Weighted cdf function to calculate XC95 values #'
1 2 3 4 |
datafile |
environmental data, default = "datafile" from global environment. |
ss |
Species crosstabed data; default = "ss" from global environment. |
plot |
A boolean to choose if plot cdf and gam plots; default = T. |
dogam |
A booleen to choose if a gam fit is calculated; default = T. |
SampleID |
Site/sample id column; default = "Station_Date" |
tag |
Default = "". |
sortvect |
to provide a vector of species list so plots will be sorted according to the list; default = NULL. |
np |
Number of bins; default = 61. |
nt |
Minimum number of occurence; default = 25. |
addtrend |
A booleen if a trend should be added ( = ">" etc) in the output (T or F); default = T. |
wd |
Working directory for saving files. |
groups |
column names in datafile used for grouping the data; HUC (BigHUC), Ecoregion (ECOREGL3), and Watershed Area (WS_Area) |
xvar |
variable on which to base calculations; default = "cond" |
A dataframe of XC95 values and TIFF files of gam and/or cdf plots in the subdirectory "Results" of the directory specified by "wd".
1 2 3 4 5 6 7 8 9 10 | # data
data(dta.do)
data(ss.sites)
# run function (~20 seconds)
dftv.do <- fish.wt.cdf(datafile = dta.do, ss = ss.sites, plot = T, dogam = T
, SampleID = "Station_Date", tag = "wt", sortvect = NULL
, np = 61, nt = 25, addtrend = T
, wd = getwd(), groups = c("BigHUC","ECOREGL3","WS_AREA")
, xvar = "cond")
View(dftv.do)
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