paleobuddy
paleobuddy can now simulate trait-dependent diversification, not just birth-death.
A side-by-side editorial comparison of distributions3 and protr — release velocity, themes, recent moves, and the top alternatives to consider.
distributions3 changes hands to Achim Zeileis, and a moment calculation bug goes with it.
An R package giving probability distributions a consistent object interface — d/p/q/r functions, moments, and prodist() methods that extract a fitted distribution from a regression object. Releases are infrequent, roughly one a year, and the last one is largely administrative: Achim Zeileis takes over maintenance from Alex Hayes, with all URLs and documentation updated to match, alongside a fix to incorrect moment calculations reported by a user.
protr's feature set is finished; the work now is surviving Bioconductor's churn.
protr generates numerical descriptors from protein sequences for machine learning, plus alignment-based similarity between sequences. The descriptor functions have been stable for years. Recent releases divide cleanly into two kinds: extending the similarity computations to work under memory constraints, and absorbing the Bioconductor split that moved pairwise alignment out of Biostrings into pwalign.
An R package giving probability distributions a consistent object interface — d/p/q/r functions, moments, and prodist() methods that extract a fitted distribution from a regression object. Releases are infrequent, roughly one a year, and the last one is largely administrative: Achim Zeileis takes over maintenance from Alex Hayes, with all URLs and documentation updated to match, alongside a fix to incorrect moment calculations reported by a user.
The package's growth has come in two modes. Early releases absorbed whole families of distributions from outside contributors — the extreme-value set, Erlang, later the Poisson binomial — while later ones tightened the interface itself with is_discrete() and is_continuous() generics and elementwise type-safety when applying a distribution vector to a numeric vector. The handover is the notable event in the current window: maintenance moves to the author of the surrounding statistical ecosystem this package already integrates with through prodist() and countreg, which suggests the interface work will continue over the distribution-collection work.
Expect closer alignment with Zeileis's own packages, with prodist() coverage widening to more model classes; the entries here do not indicate whether new distribution families remain on the agenda.
protr generates numerical descriptors from protein sequences for machine learning, plus alignment-based similarity between sequences. The descriptor functions have been stable for years. Recent releases divide cleanly into two kinds: extending the similarity computations to work under memory constraints, and absorbing the Bioconductor split that moved pairwise alignment out of Biostrings into pwalign.
The similarity side is where the remaining engineering goes, and it follows a consistent pattern — whatever parSeqSim() gained, crossSetSim() eventually gets. Batching, verbose progress and a disk-backed variant all arrived for the single-set case first and were mirrored for the cross-set case in 1.7-1. That is a maintainer closing feature-parity gaps rather than opening new directions, and the two most recent releases contain no user-facing change at all.
Expect the next release to react to another Bioconductor or R CMD check change, which accounts for three of the last four. The similarity functions now have parity, so there is no obvious internal backlog left.
Other Analytics products tracked by Sparkpulse, ranked by recent ship velocity. Each card links to a full editorial trajectory and lets you pivot into a head-to-head comparison with either distributions3 or protr.
paleobuddy can now simulate trait-dependent diversification, not just birth-death.
geodist stays dependency-free and fast, and warns you when 'cheap' distances stop being honest.
errors keeps making uncertainty print the way each scientific field expects.
CMAQ went global in v5.5, and has been patching that surface ever since.
enpls has not changed its statistics since 2016 — only its website, twice.
grex is a lookup table with a version number — it ships when the annotation moves.
See all distributions3 alternatives → · See all protr alternatives →
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
They serve adjacent needs but don't currently overlap on shipped themes. distributions3 is currently shipping more aggressively (velocity 2.5 vs 0.0), with 0 editorial sparks in the last 30 days against 0. See the at-a-glance table above for a side-by-side breakdown of velocity, recent sparks, and editorial themes.
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. distributions3 is currently shipping more aggressively (velocity 2.5 vs 0.0), with 0 editorial sparks in the last 30 days against 0. For your specific use case, the alternatives sections above list other Analytics products to evaluate alongside.
Top distributions3 alternatives in Analytics are ranked by recent ship velocity. Browse the "distributions3 alternatives" section above for the current picks, or visit /alternatives/distributions3-r for the full list with editorial commentary on each.
Top protr alternatives in Analytics are ranked by recent ship velocity. Browse the "protr alternatives" section above for the current picks, or visit /alternatives/protr-r for the full list with editorial commentary on each.