paleobuddy
paleobuddy can now simulate trait-dependent diversification, not just birth-death.
Comparison · Analytics
protr vs rosm
A side-by-side editorial comparison of protr and rosm — release velocity, themes, recent moves, and the top alternatives to consider.
protr vs rosm: at a glance
What is protr?
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.
What is rosm?
rosm 0.3.0 silently deprecates its entire API and rebuilds on wk and curl
rosm downloads and stitches raster map tiles from OpenStreetMap and similar sources for use in R. After six years without a release, 0.3.0 deprecated the whole previous API, dropped the rgdal dependency, and introduced a replacement built on wk geometry and curl's multi-download interface. The follow-up 0.3.1 is documentation and CI work, plus test skips for Bing and Stamen URLs that no longer resolve.
protr vs rosm: editorial side-by-side
protr
0.0ANALYTICS
protr's feature set is finished; the work now is surviving Bioconductor's churn.
◆ Current state
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.
◆ Where it's heading
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.
◆ Prediction
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.
rosm
0.0ANALYTICS
rosm 0.3.0 silently deprecates its entire API and rebuilds on wk and curl
◆ Current state
rosm downloads and stitches raster map tiles from OpenStreetMap and similar sources for use in R. After six years without a release, 0.3.0 deprecated the whole previous API, dropped the rgdal dependency, and introduced a replacement built on wk geometry and curl's multi-download interface. The follow-up 0.3.1 is documentation and CI work, plus test skips for Bing and Stamen URLs that no longer resolve.
◆ Where it's heading
The package is being brought back from dormancy on modern foundations rather than extended. rgdal's retirement forced the issue, and the maintainer used it to replace the download path with concurrent curl requests and to hand geometry handling to wk. What follows is consolidation: dead built-in tile sources are being tested around rather than replaced, which leaves the source registry as the obvious unfinished edge.
◆ Prediction
The dead Bing and Stamen endpoints are currently skipped rather than fixed, so the next release most likely prunes or re-points the built-in tile source list and continues retiring the silently deprecated functions.
Alternatives to protr and rosm
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 protr or rosm.
geodist
geodist stays dependency-free and fast, and warns you when 'cheap' distances stop being honest.
errors
errors keeps making uncertainty print the way each scientific field expects.
CMAQ
CMAQ went global in v5.5, and has been patching that surface ever since.
enpls
enpls has not changed its statistics since 2016 — only its website, twice.
grex
grex is a lookup table with a version number — it ships when the annotation moves.
Recent activity from protr and rosm
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 6mo agorosmDocumentation syntax and CI cleanup after the rewrite
- 6mo agorosmEntire previous API deprecated; new wk and curl backend ⚡
- 11mo agoprotrprotr 1.7-5 silences a Debian r-devel check note
- 1y agoprotrprotr 1.7-4 checks alignment dependencies upfront
- 1y agoprotrprotr 1.7-3 detects Biostrings version to find pwalign
- 2y agoprotrprotr 1.7-2 fixes citation key and vignette accessibility
- 2y agoprotrprotr 1.7-1 brings crossSetSim to parity with parSeqSim
- 2y agoprotrprotr 1.7-0 adds crossSetSim for two-set similarity
- 7y agorosmFix cancellation during tile stitching
- 9y agorosmDownloads move to curl; foreach dependency removed
- 10y agorosmFaster tile merging and overlay helpers
- 10y agorosmosm.raster() exports tiles as RasterStack objects
Frequently asked questions
What is the difference between protr and rosm?
They serve adjacent needs but don't currently overlap on shipped themes. protr and rosm 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 protr better than rosm?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. protr and rosm 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 protr?
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.
What are the best alternatives to rosm?
Top rosm alternatives in Analytics are ranked by recent ship velocity. Browse the "rosm alternatives" section above for the current picks, or visit /alternatives/rosm for the full list with editorial commentary on each.