inst/NEWS.md

In RCM: Fit row-column association models with the negative binomial distribution for the microbiome

0.2.0

• Importance parameters ψ are no longer calculated when non-parametric response functions are used.

0.3.0

• Importance parameters ψ 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 ψ'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.

1.0.0

• Release on BioConductor

1.0.1

• Bug fix in buildCovMat() to avoid false warning
• Check for alias structure in confounder and covariate matrices

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.

1.2.1

• Vertical reference line in residual plot
• Bug fix for problematic variable names

1.2.2

• Moving the online manual information to the vignette

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

1.2.4

• Adding a new inflVar variable to disambiguate in the influence plotting
• More argument checking + tests for the plot.RCM function

RCM documentation built on Nov. 8, 2020, 5:22 p.m.