rnaturalearth
rnaturalearth finished its sp exit and is now optimising how the data actually arrives.
Comparison · Analytics
bonsai vs taxize
A side-by-side editorial comparison of bonsai and taxize — release velocity, themes, recent moves, and the top alternatives to consider.
bonsai vs taxize: at a glance
What is bonsai?
bonsai keeps widening tidymodels' boosted-tree engine bench, catboost most recently
bonsai exists to attach non-core tree engines to parsnip's boost_tree() and rand_forest(), and the release history reads as a steady accumulation of them: partykit, aorsf, lightgbm, and now catboost. The 0.4.x line is spent making catboost behave like a full tidymodels citizen rather than adding anything new.
What is taxize?
taxize spends its releases absorbing other people's API changes, one dead source at a time.
The most recent work is migration: 0.10.0 replaced the deprecated Global Names Resolver functions with GNA equivalents (`gna_verifier`, `gna_parse`), rewrote `scrapenames` for the new API, and updated its rredlist usage to match that package's own v4 rewrite. 0.10.1 then tuned `gna_verifier`'s batch size to 50. The older entries in the window show the same shape from a different angle: `tnrs()` made defunct because the service died, COL dropped over rate limiting, NatureServe reworked for a new API, and a package-wide parameter rename to `sci` / `com` / `id` / `sci_com` / `sci_id`.
bonsai vs taxize: editorial side-by-side
bonsai
0.0ANALYTICS
bonsai keeps widening tidymodels' boosted-tree engine bench, catboost most recently
◆ Current state
bonsai exists to attach non-core tree engines to parsnip's boost_tree() and rand_forest(), and the release history reads as a steady accumulation of them: partykit, aorsf, lightgbm, and now catboost. The 0.4.x line is spent making catboost behave like a full tidymodels citizen rather than adding anything new.
◆ Where it's heading
Each engine follows the same arc — land it, then close the gaps that keep it from tuning cleanly (parameter naming, multi_predict, threading, case weights). Recent work is squarely in that second phase for catboost, with dials supplying the matching parameter objects on its own release schedule. Bug-fix density is high relative to new surface.
◆ Prediction
Expect the catboost integration to keep filling in tuning and GPU-related arguments before any further engine is added; the entries give no signal about which engine would come next.
taxize
0.0ANALYTICS
taxize spends its releases absorbing other people's API changes, one dead source at a time.
◆ Current state
The most recent work is migration: 0.10.0 replaced the deprecated Global Names Resolver functions with GNA equivalents (`gna_verifier`, `gna_parse`), rewrote `scrapenames` for the new API, and updated its rredlist usage to match that package's own v4 rewrite. 0.10.1 then tuned `gna_verifier`'s batch size to 50. The older entries in the window show the same shape from a different angle: `tnrs()` made defunct because the service died, COL dropped over rate limiting, NatureServe reworked for a new API, and a package-wide parameter rename to `sci` / `com` / `id` / `sci_com` / `sci_id`.
◆ Where it's heading
taxize's job is aggregating a dozen taxonomic databases, so most of its engineering is downstream of decisions it does not control — sources go away, endpoints change, rate limits appear. The visible trend is consolidation: fewer, better-maintained backends rather than broader coverage. Release cadence has thinned to roughly one a year, and the rredlist coupling means it now inherits that package's breaking changes too.
◆ Prediction
Expect the next release to track another upstream source change rather than add new databases; the deprecated-parameter aliases from the 0.9.97 rename are also overdue for removal.
Alternatives to bonsai and taxize
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 bonsai or taxize.
writexl
writexl spent nine years refusing to do formatting, then shipped all of it in 2.0.0.
rgbif
rgbif is steadily pushing users off paged searching and onto real downloads.
rstanarm
rstanarm is community-maintained now, tracking Stan and lme4 rather than adding models.
taxa
taxa started a ground-up rewrite in 2021 and has published almost nothing since.
rotl
rotl's whole release history is keeping name matching honest against a moving taxonomy.
See all bonsai alternatives → · See all taxize alternatives →
Recent activity from bonsai and taxize
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 2mo agobonsaicatboost gains multi_predict() and corrected tuning parameters
- 5mo agotaxizetaxize 0.10.1 lowers gna_verifier batch size
- 1y agobonsaicatboost engine added to boost_tree()
- 1y agobonsailightgbm accepts sparse matrices for fit and predict
- 1y agotaxizetaxize 0.10.0 migrates to GNA and the new rredlist API
- 2y agobonsaiaorsf fit failure in multisession workers fixed
- 2y agobonsaiaorsf engine added; lightgbm gains dataset params and case weights
- 3y agobonsailightgbm num_leaves becomes tunable; alias arguments disallowed
- 5y agotaxizetaxize 0.9.99 retires tnrs(), paginates WORMS queries
- 5y agotaxizetaxize 0.9.98 adds NCBI and zoological rank names
- 6y agotaxizetaxize 0.9.97 standardises parameter names package-wide
- 6y agotaxizetaxize 0.9.96 updates NatureServe for its new API
Frequently asked questions
What is the difference between bonsai and taxize?
They serve adjacent needs but don't currently overlap on shipped themes. bonsai and taxize 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 bonsai better than taxize?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. bonsai and taxize 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 Analytics products to evaluate alongside.
What are the best alternatives to bonsai?
Top bonsai alternatives in Analytics are ranked by recent ship velocity. Browse the "bonsai alternatives" section above for the current picks, or visit /alternatives/bonsai-r for the full list with editorial commentary on each.
What are the best alternatives to taxize?
Top taxize alternatives in Analytics are ranked by recent ship velocity. Browse the "taxize alternatives" section above for the current picks, or visit /alternatives/taxize for the full list with editorial commentary on each.