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Comparison · Infra & APIs
phyloatlas vs Quay
A side-by-side editorial comparison of phyloatlas and Quay — release velocity, themes, recent moves, and the top alternatives to consider.
phyloatlas vs Quay: at a glance
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.
What is Quay?
Quay ships nothing but CVE remediation, mirrored across two supported branches
Every entry in Quay's recent history is a security maintenance release, and they arrive as coordinated pairs — a 3.10.x and a 3.12.x tag cut hours apart carrying the same fixes cherry-picked to each branch. The content is dependency remediation against tracked advisories plus two SSRF hardening fixes, one in proxy cache upstream registry configuration and one in repository mirroring sources. No feature work appears in the window.
phyloatlas vs Quay: editorial side-by-side
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.
Quay
5.0INFRA · APIS
Quay ships nothing but CVE remediation, mirrored across two supported branches
◆ Current state
Every entry in Quay's recent history is a security maintenance release, and they arrive as coordinated pairs — a 3.10.x and a 3.12.x tag cut hours apart carrying the same fixes cherry-picked to each branch. The content is dependency remediation against tracked advisories plus two SSRF hardening fixes, one in proxy cache upstream registry configuration and one in repository mirroring sources. No feature work appears in the window.
◆ Where it's heading
This is a registry in pure maintenance posture on its long-lived branches, with the release process itself automated down to changelog-bump commits. The recurring SSRF fixes across proxy cache and mirroring suggest a deliberate sweep through the code paths that fetch from upstream registries rather than isolated reports. Feature development, if it is happening, is landing on a branch this feed does not cover.
◆ Prediction
Expect the paired-branch cadence to continue at roughly the rate advisories land against the bundled Python and npm dependencies. The SSRF sweep looks close to complete, having now covered both proxy cache and mirroring.
Alternatives to phyloatlas and Quay
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 phyloatlas or Quay.
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 phyloatlas alternatives → · See all Quay alternatives →
Recent activity from phyloatlas and Quay
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 7d agoQuayv3.12.21 patches six advisories and blocks SSRF in mirroring
- 7d agoQuayv3.10.25 carries the same advisory fixes to the 3.10 branch
- 27d agoQuayv3.12.20 bumps Go and blocks SSRF in proxy cache config
- 1mo agoQuayv3.10.24 backports the Go bump and proxy cache SSRF fix
- 1mo agophyloatlasv1.0.8 — turtle chronogram canonical; MEE integrity pass
- 1mo agophyloatlasv1.0.7 — restore species-name dictionary
- 1mo agoQuayv3.10.23 clears PyJWT, urllib3 and shell-quote advisories
- 1mo agophyloatlasv1.0.6 — data-integrity corrections + TimeTree de-redistribution
- 1mo agoQuayv3.12.19 clears the same four dependency advisories
- 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 ⚡
Frequently asked questions
What is the difference between phyloatlas and Quay?
They serve adjacent needs but don't currently overlap on shipped themes. Quay is currently shipping more aggressively (velocity 5.0 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.
Is phyloatlas better than Quay?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. Quay is currently shipping more aggressively (velocity 5.0 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 Infra & APIs products to evaluate alongside.
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.
What are the best alternatives to Quay?
Top Quay alternatives in Infra & APIs are ranked by recent ship velocity. Browse the "Quay alternatives" section above for the current picks, or visit /alternatives/quay for the full list with editorial commentary on each.