wql 1.0.0

• Update maintainer name and contact info
• Bump version to signify stable functioning
• Link rot fixes

wql 0.4.9

• Fork and rebrand wq to wql
• Added roxygen documentation

wq 0.4.8

• eof: Shift id to row name in output.
• eofPlot: Fix for non-numeric row names in original data.
• mannKen: Use different definition of relative sen slope.
• pett: Add change.size. Get actual change.time for zoo objects.
• phenoAmp: Change to more versatile output statistics. Change argument name.
• phenoPhase: Change argument name.
• seaKen: Use different definition of relative sen slope.
• trendHomog: Ignore seasons with insufficient data.

wq 0.4.7

• Add back html vignette.
• Fix global variable notes.
• eof: Calculation method changed.
• eofNum: Remove ruleN-based colouring.
• eofPlot: Remove Monte Carlo lines.
• plotTsTile: Default to median instead of mean.
• ruleN: Remove.

wq 0.4.6

• decompTs: Remove startyr and endyr. Add median as default centering method.
• mannKen: Remove “tau” argument. Use median instead of mean for relative. Add exact p-values. Allow matrix and data.frame. Change plot.
• pett.R: Add new function with plot for Pettitt test.
• plotTs: Remove plot.order argument. Improve legend.
• plotTsAnom: Remove plot.order argument.
• seaKen: Allow matrix and data.frame. Add plot.
• seaRoll: Change arguments and plot.
• seasonTrend: Change arguments. Remove ls trend method. Improve legend.

wq 0.4.5

• eofPlot.R: Fix argument to geom_hline.

wq 0.4.4

• wq-internal.R: Removed.
• plot WqData-class: Added global variable definitions.

wq 0.4.3

• ammFrac: Remove.
• layOut: Remove.

wq 0.4-1

• mannKen: Preserve station order in data matrix.
• mannKen: Modify examples to be more useful.
• NAMESPACE: Add importFrom(“methods”).
• NAMESPACE: Remove all require(zoo) from functions.
• plotSeason: Enable plotting by arbitrary eras.
• plotSeason: Fixed error when num.era=1.
• vignette: Remove unnecessary commands from preamble.
• wqData: Require locus to be length 3.
• WqData-class: Change tz=“UTC” default in as.Date for summary.

wq 0.3-11

• [: method now exists for WqData objects.
• plotTsTile: has additional options and a corrected help file.
• subset, transform: no longer used within code.
• wqData: handles collision between locus and wq variables with same name.
• minor bug fixes.

wq 0.3-10

• Vignette (re-)included.
• Minor changes in plotting functions.

wq 0.3-8

• Updated for ggplot2 0.9.2.

wq 0.3-7

• Minor changes to manual.

wq 0.3-6

• Minor changes to code, with no changes in behaviour.

wq 0.3-5

• Addresses issues introduced with version 0.9 of ggplot2.
• Uses reshape2 instead of reshape.
• plotTsAnom and seasonTrend: minor plotting changes.

wq 0.3-4

• date2decyear: Converts dates to numeric years.
• interpTs: More options for replacing NAs.
• plotTs: Time series line plot plus isolated points
• plotTsAnom: Now works for matrix time series.
• theme_wq: Simplified version of theme_grey in package “ggplot2”.
• tsMake: No longer excruciatingly slow when layer = “max.depths”

wq 0.3-3

• plotTsAnom: time series anomaly plot.
• tsMake: Now aggregates depths (and days) by quantiles as well as means.
• plotSeason: Fixed problem with missing data treatment.
• tsSub: Fixed problem with incorrect starting month.

wq 0.3-1

• plot method for class “WqData”: Boxplots instead of stripcharts. Also fixed behaviour when less than 10 unique variables.
• plotSeason: Changed “by.month” option to standardized anomalies.
• tsMake: Added option to create series for “bottom” of water column.
• Version requirement is R 10.0.
• Vignette file size fixed so it can be downloaded from HTML help.

wq 0.3

• All plot functions now produce objects of class “ggplot”.
• layOut: Lays out graphs of class ggplot.
• mannKen: Added mts and plot options.
• meanSub: Utility function to average subsets.
• mts2ts: Prepare spatial time series for further analysis.
• plotSeason: Added another way of plotting.
• seaRoll: Plotting is an additional option.
• trendHomog: Test for homogeneity of seasonal trends.
• tsSub: Utility function to drop seasons in a ts.
• plotEof: Changed to eofPlot.

wq 0.2-9

• phenoPhase: Integration defaults can now be changed, if necessary.
• plotSeason: Added smoother when type=‘by.month’.
• seasonTrend: Changed appearance and some options.
• plotSeason: Fixed problem when type=‘by.month’.
• plotTsTile: Now plots correct colours when four=FALSE.
• tsMake: Fixed problem when layer of class “numeric”.

wq 0.2-8

• wqData: Changed “narrow” to “long”.
• plotSeas: Changed to plotSeason.
• ammFrac: New function for un-ionized ammonium.
• plotSeason: Added option to plot individual months for entire record.
• seasonTrend: New function for time series trends by season.
• tsMake: Now allows for more ways of specifying depths.
• mannKen, seaKen: Now gives correct sign when trend given as %.
• phenoAmp: Fixed problem when subsetting months leaves no data for year.
• phenoPhase: Fixed problem when subsetting months and x is a “zoo” object.
• plotSeason: Now handles num = 1.
• tsMake: Fixed problem when focus consisted of a single variable or site.

wq 0.2-5

• interpTs: Option to fill with long-term mean or median.
• plotSeas: Option to choose number of intervals.
• WqData plot method: Option to choose variables.
• phenoPhase: Fixed problem where max.time month number given relative to subset rather than whole year
• plotTsTile: More useful error message when not enough data.
• seaRoll: Fixed problem with frequencies other than 12.
• tsMake: Remove need to specify layer if no depth info.
• WqData subset method: Removed because of strategy that WqData objects should not be changed.
• wqData: Argument value “narrow” changed to more conventional “long”.
• wqData: Now requires time.format to be specified.
• wqData: Now ensures variable is a factor when type = “long”.