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Comparison · Infra & APIs
ordbetareg vs phyloatlas
A side-by-side editorial comparison of ordbetareg and phyloatlas — release velocity, themes, recent moves, and the top alternatives to consider.
ordbetareg vs phyloatlas: at a glance
What is ordbetareg?
A brms wrapper for bounded outcomes that keeps handing users more control over the model's internals.
ordbetareg fits ordered beta regression — outcomes bounded at both ends, with mass at the bounds — on top of brms. Each release has opened up a layer that was previously fixed: v0.5.0 added posterior predictive checks and user-specified bounds, and v0.8 added a full prior override that makes cutpoint modeling possible, plus component-wise prediction of the bottom, middle and top of the scale.
What is phyloatlas?
An atlas of the tree of life that keeps publishing what it got wrong, and stopped shipping the trees it does not own.
This is a curated deposit of species-level phylogenies — 264 trees across 62 partitions, 247 of them time-calibrated — paired with a species-name dictionary of roughly 638,000 standardized labels and per-tree provenance. It is moving through peer review at Methods in Ecology and Evolution, and the release stream is essentially a public erratum log: eight releases in five weeks, each reconciling the deposit against source papers, the manuscript, and its own metadata. The most recent replaced the turtle canonical with a 274-tip ultrametric chronogram after the previous tree failed time-calibration integrity checks.
ordbetareg vs phyloatlas: editorial side-by-side
ordbetareg
0.0INFRA · APIS
A brms wrapper for bounded outcomes that keeps handing users more control over the model's internals.
◆ Current state
ordbetareg fits ordered beta regression — outcomes bounded at both ends, with mass at the bounds — on top of brms. Each release has opened up a layer that was previously fixed: v0.5.0 added posterior predictive checks and user-specified bounds, and v0.8 added a full prior override that makes cutpoint modeling possible, plus component-wise prediction of the bottom, middle and top of the scale.
◆ Where it's heading
The direction is from a convenience wrapper toward something users can take apart. The pattern across releases is the same move repeated at greater depth: what was hard-coded becomes an argument. Documentation is expanding in step, with the vignette now covering power analysis and cutpoint modeling, which suggests the audience is being taught to use the lower-level controls rather than the defaults.
◆ Prediction
Given that priors, bounds and predicted components are now all exposed, the next release most plausibly extends the diagnostic and plotting surface rather than the model itself — though releases here are more than a year apart, so timing is unpredictable.
phyloatlas
0.0INFRA · APIS
An atlas of the tree of life that keeps publishing what it got wrong, and stopped shipping the trees it does not own.
◆ Current state
This is a curated deposit of species-level phylogenies — 264 trees across 62 partitions, 247 of them time-calibrated — paired with a species-name dictionary of roughly 638,000 standardized labels and per-tree provenance. It is moving through peer review at Methods in Ecology and Evolution, and the release stream is essentially a public erratum log: eight releases in five weeks, each reconciling the deposit against source papers, the manuscript, and its own metadata. The most recent replaced the turtle canonical with a 274-tip ultrametric chronogram after the previous tree failed time-calibration integrity checks.
◆ Where it's heading
The project's defining decision is that it archives the recipe rather than the corpus. Since 1.0.3 the Zenodo deposit holds metadata, provenance, and standardization code while the tree files live at their original sources, and the same principle was applied again when the TimeTree-of-Life was removed at the TimeTree project's request and reduced to a citation. What makes the correction log unusual is its direction: partitions keep getting reclassified from dated to undated as verification confirms the source papers described chronograms they never deposited. The atlas is being built to be honest about archival uncertainty rather than to maximize coverage.
◆ Prediction
The release cadence is driven by the manuscript review cycle, so expect corrections to continue until MEE acceptance and then slow sharply; the open thread most likely to produce the next one is the remaining recoverable archival uncertainty flagged across non-Condamine dated source trees.
Alternatives to ordbetareg and phyloatlas
Other Infra & APIs 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 ordbetareg or phyloatlas.
forestploter
A forest plot package that keeps handing users control of one more graphical detail.
ggInterval
Interval-valued data plotting, spending 2026 making its function names and examples survive CRAN.
rgm
A microbiome network model that got itself un-archived by deleting the dependency that killed it.
contagionchannels
Three releases in ten days, every one of them a CRAN reviewer's correction rather than a code change.
tidyaudit
Pipeline provenance for tidyverse workflows, recording what changed at each step without keeping the data.
See all ordbetareg alternatives → · See all phyloatlas alternatives →
Recent activity from ordbetareg and phyloatlas
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 1mo agophyloatlasv1.0.8 — turtle chronogram canonical; MEE integrity pass
- 1mo agophyloatlasv1.0.7 — restore species-name dictionary
- 1mo agophyloatlasv1.0.6 — data-integrity corrections + TimeTree de-redistribution
- 2mo agophyloatlasv1.0.5 — consistency corrections
- 2mo agophyloatlasv1.0.4 — data corrections + canonical succession (Supplementary Table S7)
- 2mo agophyloatlasv1.0.3 — title alignment, LICENSE, three-category framework, sensitivity bounds ⚡
- 1y agoordbetaregManual priors unlock cutpoint modeling; new component predictions
- 3y agoordbetaregordbetareg release v0.7.0
- 3y agoordbetaregPosterior predictive checks and user-set outcome bounds
Frequently asked questions
What is the difference between ordbetareg and phyloatlas?
They serve adjacent needs but don't currently overlap on shipped themes. ordbetareg and phyloatlas are shipping at a similar cadence (velocity 0.0 vs 0.0, both within Sparkpulse's "active" band). See the at-a-glance table above for a side-by-side breakdown of velocity, recent sparks, and editorial themes.
Is ordbetareg better than phyloatlas?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. ordbetareg and phyloatlas are shipping at a similar cadence (velocity 0.0 vs 0.0, both within Sparkpulse's "active" band). For your specific use case, the alternatives sections above list other Infra & APIs products to evaluate alongside.
What are the best alternatives to ordbetareg?
Top ordbetareg alternatives in Infra & APIs are ranked by recent ship velocity. Browse the "ordbetareg alternatives" section above for the current picks, or visit /alternatives/ordbetareg for the full list with editorial commentary on each.
What are the best alternatives to phyloatlas?
Top phyloatlas alternatives in Infra & APIs are ranked by recent ship velocity. Browse the "phyloatlas alternatives" section above for the current picks, or visit /alternatives/phylo-species-atlas for the full list with editorial commentary on each.