Changes in version 1.11.3 - For the unconstrained models: fit feature models one by one and Gram-Schmidt orthogonalize and center afterwards, rather than using Lagrange multipliers and huge Jacobian matrices. This will use less memory and speed up computations, but may yield slightly different solutions. Nothing changes for the constrained models. Changes in version 1.11.2 - Explicitly import stats::model.matrix, and only load necessary VGAM functions Changes in version 1.11.0 - Added FAQ section in vignette with first frequent question on number of samples not shown. - Fixed bugs for plots of data with missing values, and added tests. Changes in version 1.5.7 - Update vignette to number table of contents Changes in version 1.5.6 - Replace deprecated guides( =FALSE) by guides(=“none”) Changes in version 1.5.5 - Bug fix for higher dimension residualPlot function, and tests for this function Changes in version 1.5.4 - A note in the vignette and in the help file of plot.RCM regarding limited number of combinations of constraining variables. Also a warning is now thrown Changes in version 1.5.2 - Avoid returning nulls for residualPlot Changes in version 1.2.4 - Adding a new inflVar variable to disambiguate in the influence plotting - More argument checking + tests for the plot.RCM function Changes in version 1.2.3 - Rename a and b to rowExp and colExp to avoid partial matching - Allow rowExp and colExp to be adapted for constrained correspondence analysis starting values as well Changes in version 1.2.2 - Moving the online manual information to the vignette Changes in version 1.2.1 - Vertical reference line in residual plot - Bug fix for problematic variable names Changes in version 1.2.0 - Missing values in count matrix are now allowed. They simply do not contribute to the parameter estimation, but the rest of the row (or column) is still used. Changes in version 1.0.1 - Bug fix in buildCovMat() to avoid false warning - Check for alias structure in confounder and covariate matrices Changes in version 1.0.0 - Release on BioConductor Changes in version 0.3.0 - Importance parameters (\psi) are enabled again when non-parametric response functions are used, but not used for plotting. - 2D sample plots for constrained ordination with non-parametric response functions have been disabled, as they are not interpretable. Variable plots are the only 2D plots still allowed - Explained deviance and inertia can be plotted on the axes rahter than the (\psi)’s using the “plotPsi” argument to the plot.RCM() function. - Possibility to provide lower dimensional fits has been disabled. RCM is fast enough to fit the whole model. Changes in version 0.2.0 - Importance parameters (\psi) are no longer calculated when non-parametric response functions are used.