Changelog

Source: NEWS.md

Version 0.4.1

New functions

• New internal function st_poi() (pseudo-centroid)
• detect_forages() (experiment)

Minor changes

• Adding argument naming_convention to various functions
• Force ID to be character
• Plot points without QA
• Speed-up cut_cycles()
• Check for empty inputs in aggregate_pheno()
• Rename default branch master to main according to Git and Branch Naming
• Update documentation

Version 0.4.0

First sen2rts beta version.

Implementations

• Complete function assign_season().
• Patch PhenoDeriv() (function imported from package phenopix) to support the definition of relative slopes (this feature will be better documented in future).
• In cut_cycles(), bot methods based on argument min_h and on Meroni et al.
  2021. can now be used.
• Edits to Savitzky-Golay filter:
  1. spikes are removed only if the quality of the vertex is lower than the averaged quality of other points;
  2. points corresponding to missing dates are interpolated with approx() instead than put to 0;
  3. points with qa < min_qa are removed and not yet interpolated (no more necessary). Problem still present: in Savitzky-Golay filter, left and right borders are interpolated without considering the point quality.
• In smooth_s2ts(), add the possibility to skip spike removal.
• In smooth_s2ts(), exclude low values before removing spikes (to avoid errors).

Documentation

• Write the vignette “The sen2rts workflow” describing a complete use case.
• Complete reference documentation adding examples.
• Add a small data set in the package to support documentation.

Dependencies

• Move ggplot2 from suggested to imported dependencies (so to facilitate tests and examples).

Changes in default values

• read_s2cube() is now load_s2paths().
• In smooth_s2ts(), sg_daywindow = 15 instead than 9.

Bug fixes

• Fix problems in plot colour ramps.
• Fix package checks.

Version 0.3.1

Implementations

• fit_curve(): add value "no" for argument fit (useful to skip interpolation to extract phenological metrics with TRS).
• New function aggregate_pheno() to aggregate phenological metrics.
• New function assign_season() to assign a season label to cycles.
• Change SG window: from n. images to days. In this way there are no differences among periods with/without S2B (when only S2A exists the curve is less smoothed, but the window is the same in terms of days).
• Allow multiple fit values in fit_curve(), so to use the secondary method in case of failure of the first.
• Rewrite cut_cycles() to follow Meroni et al. (2021).

Minor changes

• Semantic change: season -> cycle, involving name of functions (cut_seasons() -> cut_cycles()) and parameters.
• Patch PhenoTrs() to ensure sos < pop < eos.
• year is added to outputs of functions since cut_cycles().
• Allow specifying a maximum number of seasons per year.
• Adapt plot methods.
• Fixes.

Version 0.3.0

• New functions to reach milestone 2:
  • cut_seasons(): cut Sentinel-2 time series into separate seasons, detecting dates of cuts and of peaks;
  • fit_curve(): fit a curve using a parametric function from phenopix::greenProcess();
  • extract_pheno(): extract phenological metrics from a fitted time series using methods from phenopix::PhenoExtract();
  • filter_seasons(): filter detected seasons basing on dates of begin / end / peak, and associate each season with a reference year.
• Update plot methods to integrate phenological metrics and fitted curves (this will be improved).

Version 0.2.2

• Savitzky-Golay filtered can be repeated to better follow higher values.
• CLD values are no more used “as are”, but rescaled basing on SCL weights assigned to cloudy classes.
• Weight values > qa_min are no more rescaled to 0-1; values with < qa_min are no more removed, but replaced with a linear interpolation.
• scl_weights() default values are slightly changed according to previous change.
• Spikes are removed before filtering on qa.
• In extract_s2ts() on polygon features, best values of each polygon can be used instead of the weighted average.

Version 0.2.1

• Add arguments max_na_days and method to fill_s2ts()
• Improvements in class s2ts

Version 0.2.0

First package release (still in alpha version) including functions planned for first milestone:

• read_s2cube() to build data cubes from Sentinel-2 archives;
• extract_s2ts() to build raw time series in s2ts format;
• smooth_s2ts() to smooth and filter time series;
• fill_s2ts() to fill non equally-temporally weighted time series.