paleobuddy
paleobuddy can now simulate trait-dependent diversification, not just birth-death.
Comparison · Analytics
geos vs treespace
A side-by-side editorial comparison of geos and treespace — release velocity, themes, recent moves, and the top alternatives to consider.
geos vs treespace: at a glance
What is geos?
The thin GEOS binding for R adds terra interop after three years of compiler triage
geos is a low-overhead R binding to the GEOS geometry engine, exposing predicates, overlays and spatial indexes with minimal copying. Version 0.2.5 accepts terra SpatVector objects directly, alongside fixes for zero-length memcpy and plotting of invalid geometries. The releases between 0.2.0 and 0.2.5 contain almost no feature work — they are responses to compiler warnings, sanitiser findings and CRAN check failures.
What is treespace?
treespace ships once every year or two, and only when CRAN or a user forces it.
treespace explores and compares sets of phylogenetic and transmission trees, including the tree-distance measures used in outbreak reconstruction. Its release history is entirely reactive: five updates across five years, each triggered by a CRAN policy change, an upstream package removal, or a bug someone reported. The most recent is an Rd cross-reference format patch plus a maintainer email change.
geos vs treespace: editorial side-by-side
geos
0.0ANALYTICS
The thin GEOS binding for R adds terra interop after three years of compiler triage
◆ Current state
geos is a low-overhead R binding to the GEOS geometry engine, exposing predicates, overlays and spatial indexes with minimal copying. Version 0.2.5 accepts terra SpatVector objects directly, alongside fixes for zero-length memcpy and plotting of invalid geometries. The releases between 0.2.0 and 0.2.5 contain almost no feature work — they are responses to compiler warnings, sanitiser findings and CRAN check failures.
◆ Where it's heading
Feature development stopped after 0.2.0 and the package has since been kept alive against a moving toolchain: strict-prototypes warnings, a clang sanitiser error, format string checks, an M1 test failure. The 0.2.5 terra support breaks that pattern and came from an outside contributor, which suggests the package's direction is now set by what neighbouring spatial packages need from it rather than by GEOS feature coverage.
◆ Prediction
GEOS has released new capabilities since the 3.11 features wired up in 0.2.0, and none have been exposed since; whether the next release closes that gap or continues as interop-and-maintenance is the open question the history does not yet answer.
treespace
0.0ANALYTICS
treespace ships once every year or two, and only when CRAN or a user forces it.
◆ Current state
treespace explores and compares sets of phylogenetic and transmission trees, including the tree-distance measures used in outbreak reconstruction. Its release history is entirely reactive: five updates across five years, each triggered by a CRAN policy change, an upstream package removal, or a bug someone reported. The most recent is an Rd cross-reference format patch plus a maintainer email change.
◆ Where it's heading
The package is stable and lightly staffed rather than abandoned — bugs that affect correctness do get fixed, and CRAN deadlines are met. But the 2023 update is the telling one: rather than vendor or replace adephylo when it faced removal, the maintainers disabled two tree-vector methods and marked the loss as hopefully temporary. Two years on, nothing in the feed indicates they came back.
◆ Prediction
The next entry will most likely be another CRAN-compliance patch, on the pattern of four of the last five releases. Whether the Abouheif and sumDD methods ever return is not something these entries give any signal on.
Alternatives to geos and treespace
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 geos or treespace.
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.
See all geos alternatives → · See all treespace alternatives →
Recent activity from geos and treespace
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 7mo agogeosAccepts terra SpatVector objects; invalid-geometry plotting fixed
- 11mo agotreespacetreespace patches Rd cross-references for CRAN
- 2y agogeosFix format string checks flagged by CRAN
- 2y agogeosNA/NaN handling adjusted for waldo; M1 test fixed
- 2y agotreespacetreespace disables Abouheif and sumDD as adephylo exits CRAN
- 3y agotreespacetreespace fixes vignette build on NA tree names
- 3y agogeosSilence -Wstrict-prototypes warnings
- 3y agogeosFix clang address sanitizer error
- 3y agogeosGEOS 3.11 functions exposed; spatial tree and join helpers added
- 5y agotreespacetreespace fixes dist indexing that broke its tests
- 5y agotreespacetreespace corrects tip label handling in transmission distances
Frequently asked questions
What is the difference between geos and treespace?
They serve adjacent needs but don't currently overlap on shipped themes. geos and treespace 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 geos better than treespace?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. geos and treespace 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 geos?
Top geos alternatives in Analytics are ranked by recent ship velocity. Browse the "geos alternatives" section above for the current picks, or visit /alternatives/geos-r for the full list with editorial commentary on each.
What are the best alternatives to treespace?
Top treespace alternatives in Analytics are ranked by recent ship velocity. Browse the "treespace alternatives" section above for the current picks, or visit /alternatives/treespace-r for the full list with editorial commentary on each.