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metabolyseR 0.14.7

  • Single replicate classes now automatically removed by plotLDA().

metabolyseR 0.14.6

metabolyseR 0.14.5

  • Correlation analysis results now include an absolute correlation coefficient column by which the results are also arranged in descending order.

metabolyseR 0.14.4

metabolyseR 0.14.3

metabolyseR 0.14.2

  • Package version, creation date and verbose argument added to prototype of Analysis class.

  • All generics are now defined as standard generics.

  • Added metrics method for Analysis class.

  • metrics method for lists now ignores list elements that are not of class RandomForest.

metabolyseR 0.14.1

  • Changed the RSDthresh argument default to 50% instead of 0.5% in QCrsdFilter generic.

metabolyseR 0.14.0

  • Added a NEWS.md file to track changes to the package.

  • pkgdown site now available at https://jasenfinch.github.io/metabolyseR/.

  • Bug reports and issues URL at https://github.com/jasenfinch/metabolyseR/issues added to package DESCRIPTION.

  • Dedicated vignettes now available for a quick start example analysis, data pre-treatment and data modelling.

  • Function examples added to all documentation pages.

  • Unit test coverage increased to > 95%.

  • Parallel processing is now implemented using the future package.

  • plan() from the future package is re-exported.

  • RandomForest and Univariate classes now inherit from class the AnalysisData class.

  • Improvements to plot theme aesthetics.

  • type argument added to plotPCA(), plotLDA(), plotUnsupervisedRF() and plotSupervisedRF() methods for the Analysis class.

  • "pre-treated" for specifying type argument in Analysis class methods now used over "preTreated"

  • Added clsRename() method for renaming class information columns.

  • plotMeasures() method renamed to plotMetrics().

  • Added plotMDS(), plotImportance() and plotMetrics() methods for lists of RandomForest class objects.

  • Added plotExplanatoryHeatmap() method for lists of RandomForest or Univariate class objects.

  • Renamed keepVariables() and removeVariables() methods to keepFeatures() and removeFeatures().

  • Added the helper functions preTreatmentElements(), preTreatmentMethods() and preTreatParameters() for declaring pre-treatment parameters for the AnalysisParameters class.

  • Added the helper functions modellingMethods() and modellingParameters() for declaring modelling parameters for the AnalysisParameters class.

  • Added helper function correlationsParameters() for declaring correlations parameters for the AnalysisParameters class.

  • Added binaryComparisons() method for retrieving all possible binary class comparisons from an AnalysisData class object.

  • changeParameter() now assigns parameter values through direct assignment.

  • Added analysisResults() method from extracting analysis elements results from the Analysis class.

  • Added exportParameters() method for exporting analysis parameters to YAML file format.

  • Added dat() and sinfo() accessor methods for the Analysis class.

  • Relative standard deviation (RSD) values are now specified and returned as percentages.