R/compute_full_analysis.R
compute_full_analysis.RdCalculates tables and plots from a suite of statistics from fasstr functions. Calculates statistics from all
values, unless specified.The statistics are grouped into 7 analysis groups (see analyses argument) which are stored in
lists in the object. Due to the number of tables and plots to be made, this function may take several minutes to complete. If
ignore_missing = FALSE (default) and there is missing data, some tables and plots may be empty and produce warnings.
Use ignore_missing = TRUE to ignore the missing values or filter your data to complete years.
Returns a list of tibbles and plots.
compute_full_analysis(
data,
dates = Date,
values = Value,
groups = STATION_NUMBER,
station_number,
analyses = 1:7,
basin_area,
water_year_start = 1,
start_year,
end_year,
exclude_years,
months = 1:12,
complete_years = FALSE,
ignore_missing = FALSE,
allowed_missing_annual = ifelse(ignore_missing, 100, 0),
allowed_missing_monthly = ifelse(ignore_missing, 100, 0),
zyp_method = "zhang",
zyp_alpha
)Data frame of daily data that contains columns of dates, flow values, and (optional) groups (e.g. station numbers).
Leave blank or set to NULL if using station_number argument.
Name of column in data that contains dates formatted YYYY-MM-DD. Only required if dates column name is not
'Date' (default). Leave blank or set to NULL if using station_number argument.
Name of column in data that contains numeric flow values, in units of cubic metres per second.
Only required if values column name is not 'Value' (default). Leave blank if using station_number argument.
Name of column in data that contains unique identifiers for different data sets, if applicable. Only required
if groups column name is not 'STATION_NUMBER'. Function will automatically group by a column named 'STATION_NUMBER' if
present. Remove the 'STATION_NUMBER' column beforehand to remove this grouping. Leave blank if using station_number
argument.
Character string vector of seven digit Water Survey of Canada station numbers (e.g. "08NM116") of
which to extract daily streamflow data from a HYDAT database. Requires tidyhydat package and a HYDAT database.
Leave blank if using data argument.
Numeric vector of analyses to run (default is all (1:7)):
1: Screening
2: Long-term
3: Annual
4: Monthly
5: Daily
6: Annual Trends
7: Low-flow Frequencies
Upstream drainage basin area, in square kilometres, to apply to observations. Three options:
(1) Leave blank if groups is STATION_NUMBER with HYDAT station numbers to extract basin areas from HYDAT.
(2) A single numeric value to apply to all observations.
(3) List each basin area for each group/station in groups (can override HYDAT value if listed) as such c("08NM116" = 795,
"08NM242" = 10). If group is not listed the HYDAT area will be applied if it exists, otherwise it will be NA.
Numeric value indicating the month (1 through 12) of the start of water year for
analysis. Default 1.
Numeric value of the first year to consider for analysis. Leave blank or set well before start date (i.e.
1800) to use from the first year of the source data.
Numeric value of the last year to consider for analysis. Leave blank or set well after end date (i.e.
2100) to use up to the last year of the source data.
Numeric vector of years to exclude from analysis. Leave blank or set to NULL to include all years.
Numeric vector of months to include in analysis. For example, 3 for March, 6:8 for Jun-Aug or
c(10:12,1) for first four months (Oct-Jan) when water_year_start = 10 (Oct). Default summarizes all
months (1:12). If not all months, seasonal total yield and volumetric flows will not be included.
Logical values indicating whether to include only years with complete data in analysis. Default FALSE.
Logical value indicating whether dates with missing values should be included in the calculation. If
TRUE then a statistic will be calculated regardless of missing dates. If FALSE then only those statistics from
time periods with no missing dates will be returned. Default FALSE.
Numeric value between 0 and 100 indicating the percentage of missing dates allowed to be
included to calculate an annual statistic (0 to 100 percent). If 'ignore_missing = FALSE' then it defaults to 0
(zero missing dates allowed), if 'ignore_missing = TRUE' then it defaults to 100 (any missing dates allowed);
consistent with ignore_missing usage. Supersedes ignore_missing when used. Only for annual means, percentiles,
minimums, and maximums.
Numeric value between 0 and 100 indicating the percentage of missing dates allowed to be
included to calculate a monthly statistic (0 to 100 percent). If 'ignore_missing = FALSE' then it defaults to 0
(zero missing dates allowed), if 'ignore_missing = TRUE' then it defaults to 100 (any missing dates allowed);
consistent with ignore_missing usage. Supersedes ignore_missing when used.Only for monthly means, percentiles,
minimums, and maximums.
Character string identifying the prewhitened trend method to use from 'zyp', either 'zhang' or
'yuepilon'. 'zhang' is recommended over 'yuepilon' for hydrologic applications (see
compute_annual_trends(); Bürger 2017; Zhang and Zwiers 2004). Only required if analysis group 6 is included.
Default 'zhang'.
Numeric value of the significance level (ex. 0.05) of when to plot a trend line. Leave blank for no line.
A list of lists of tibble data frames and ggplot2 objects from various fasstr functions organized by the analysis groups as listed above.
plot_flow_data,
screen_flow_data,
plot_data_screening,
plot_missing_dates,
calc_longterm_monthly_stats,
plot_longterm_monthly_stats,
calc_longterm_daily_stats,
plot_longterm_daily_stats,
plot_monthly_means,
plot_flow_duration,
calc_annual_stats,
plot_annual_stats,
calc_annual_cumulative_stats,
plot_annual_cumulative_stats,
calc_annual_flow_timing,
plot_annual_flow_timing,
calc_annual_normal_days,
plot_annual_normal_days,
calc_annual_lowflows,
plot_annual_lowflows,
plot_annual_means,
calc_monthly_stats,
plot_monthly_stats,
calc_monthly_cumulative_stats,
plot_monthly_cumulative_stats,
calc_daily_stats,
plot_daily_stats,
calc_daily_cumulative_stats,
plot_daily_cumulative_stats,
compute_annual_trends,
compute_annual_frequencies,
write_flow_data,
write_plots
if (FALSE) {
# Working examples:
# Compute a full analysis will all the analyses
results <- compute_full_analysis(station_number = "08NM116",
start_year = 1980,
end_year = 2010)
# Compute a full analysis with only Annual (3) and Daily (5) analyses
results <- compute_full_analysis(station_number = "08NM116",
start_year = 1980,
end_year = 2010,
analyses = c(3,5))
}