Minor question: Some standard packages exist twice

I keep a 'personal' package library (/home/tristan/R/library) in order to avoid clutter when new R versions are being published. I noticed that newer versions of some standard packages appear in this personal library, alongside an older one in the standard library (/usr/lib/R/library). The respective packages are codetools, KernSmooth, lattice, mgcv, nnet, and spatial.

I think I remember that certain R packages are updated via apt at irregular intervals, for instance mgcv.

But I suppose the newer package versions show up in the personal (and default) library when updating via RStudio's "Check for Package Updates..." menu item? I guess my question is this: Is there a "race" between manual updates via the interface and those via apt?

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