paleobuddy
paleobuddy can now simulate trait-dependent diversification, not just birth-death.
Comparison · Analytics
filearray vs grex
A side-by-side editorial comparison of filearray and grex — release velocity, themes, recent moves, and the top alternatives to consider.
filearray vs grex: at a glance
What is filearray?
The on-disk array layer under RAVE spends its releases hunting segfaults.
filearray stores large arrays on disk and reads them back with little memory overhead, serving as the storage substrate for the RAVE intracranial EEG stack. The 0.2.2 release fixes out-of-bound indexing that caused segfaults along certain margins and an ASAN-flagged signed integer overflow in the load path. The user-facing API has been stable since 0.1.6.
What is grex?
grex is a lookup table with a version number — it ships when the annotation moves.
grex converts the deprecated Ensembl gene IDs found in GTEx data into current gene symbols and identifiers, using org.Hs.eg.db as its reference. Its value is entirely in that bundled reference data, so a release either refreshes the mapping or does nothing to it. The 2025 release does nothing to it: GitHub Actions for the docs site, a check-note fix, and a smaller vignette.
filearray vs grex: editorial side-by-side
filearray
0.0ANALYTICS
The on-disk array layer under RAVE spends its releases hunting segfaults.
◆ Current state
filearray stores large arrays on disk and reads them back with little memory overhead, serving as the storage substrate for the RAVE intracranial EEG stack. The 0.2.2 release fixes out-of-bound indexing that caused segfaults along certain margins and an ASAN-flagged signed integer overflow in the load path. The user-facing API has been stable since 0.1.6.
◆ Where it's heading
This is infrastructure whose release history reads as a memory-safety log: unprotected C++ variables, buffer sizes exceeding array length, allocations one byte short, endianness on big-endian platforms, and now out-of-bound margins caught by sanitizers. The one sustained feature direction is reducing the cost of operating on arrays too large for memory — lazy operator evaluation through a proxy class, fmap-style application, and marginal collapse. Portability work has steadily removed hard requirements, dropping the C++11 declaration and swapping OpenMP for TinyThreads to get parallelism on macOS.
◆ Prediction
Expect continued sanitizer-driven patches rather than new interfaces; the three-year gap before 0.2.2 suggests releases now arrive only when a crash or a CRAN check demands one.
grex
0.0ANALYTICS
grex is a lookup table with a version number — it ships when the annotation moves.
◆ Current state
grex converts the deprecated Ensembl gene IDs found in GTEx data into current gene symbols and identifiers, using org.Hs.eg.db as its reference. Its value is entirely in that bundled reference data, so a release either refreshes the mapping or does nothing to it. The 2025 release does nothing to it: GitHub Actions for the docs site, a check-note fix, and a smaller vignette.
◆ Where it's heading
The annotation refreshes stopped. Between 2017 and 2019 the package tracked org.Hs.eg.db through four versions and added the GTEx V7 identifier set; since then the reference has stood still while the releases turned to packaging. That gap matters more here than it would elsewhere — a stale mapping table silently returns outdated symbols rather than failing, so the package's core asset ages invisibly.
◆ Prediction
Nothing in these entries signals a planned data refresh, and the six-year pattern suggests the next release will again be infrastructure. Users needing current annotations should check which org.Hs.eg.db version is bundled rather than assume the version number reflects it.
Alternatives to filearray and grex
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 filearray or grex.
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.
protr
protr's feature set is finished; the work now is surviving Bioconductor's churn.
See all filearray alternatives → · See all grex alternatives →
Recent activity from filearray and grex
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 2mo agofilearraySegfault on out-of-bound margins fixed
- 1y agogrexgrex 1.9.1: pkgdown on Actions, smaller vignette
- 3y agofilearrayLazy operator evaluation and macOS parallelism
- 3y agofilearraySequential read bug in fmap corrected
- 4y agofilearrayPartition limit removed by opening files on demand
- 4y agofilearrayHeader signatures and symbolic link detection
- 4y agofilearrayFlush timing left to the operating system
- 7y agogrexgrex 1.9 refreshes the reference to org.Hs.eg.db 3.8.2
- 8y agogrexgrex 1.8 adds GTEx V7 IDs, updates to org.Hs.eg.db 3.6.0
- 8y agogrexgrex 1.7 updates the reference to org.Hs.eg.db 3.4.2
- 8y agogrexgrex 1.6 drops Google Fonts from vignettes
- 9y agogrexgrex 1.5 adds a pkgdown site and refreshes the reference
Frequently asked questions
What is the difference between filearray and grex?
They serve adjacent needs but don't currently overlap on shipped themes. filearray and grex 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 filearray better than grex?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. filearray and grex 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 filearray?
Top filearray alternatives in Analytics are ranked by recent ship velocity. Browse the "filearray alternatives" section above for the current picks, or visit /alternatives/filearray-r for the full list with editorial commentary on each.
What are the best alternatives to grex?
Top grex alternatives in Analytics are ranked by recent ship velocity. Browse the "grex alternatives" section above for the current picks, or visit /alternatives/grex-r for the full list with editorial commentary on each.