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Comparison · Analytics
filearray vs qtl
A side-by-side editorial comparison of filearray and qtl — release velocity, themes, recent moves, and the top alternatives to consider.
filearray vs qtl: 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 qtl?
R/qtl is in pure custodial mode: every recent release answers a compiler, not a user
R/qtl is the long-established R package for QTL mapping in experimental crosses, covering interval mapping, composite interval mapping, multiple-QTL model fitting and the associated cross data formats. Nothing in the recent release history adds capability. Version 1.74 removes an include that started warning on CRAN, 1.72 improves an error message in cim(), and 1.70 migrates the C code from Calloc/Realloc/Free to their R_-prefixed equivalents for R-devel.
filearray vs qtl: 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.
qtl
0.0ANALYTICS
R/qtl is in pure custodial mode: every recent release answers a compiler, not a user
◆ Current state
R/qtl is the long-established R package for QTL mapping in experimental crosses, covering interval mapping, composite interval mapping, multiple-QTL model fitting and the associated cross data formats. Nothing in the recent release history adds capability. Version 1.74 removes an include that started warning on CRAN, 1.72 improves an error message in cim(), and 1.70 migrates the C code from Calloc/Realloc/Free to their R_-prefixed equivalents for R-devel.
◆ Where it's heading
The package is being maintained, not developed. The work divides cleanly into keeping the compiled code building against successive R and toolchain versions, and fixing narrow bugs reported through the issue tracker. The C-level migrations in particular are compliance with R's tightening of its C interface rather than anything chosen. Users should read the stability as maturity: the analysis surface has been fixed for years and the maintainer is keeping it installable.
◆ Prediction
R has continued to restrict its non-API C entry points, and this package has already made two such migrations, so further compile-time compliance work is the most likely content of the next release.
Alternatives to filearray and qtl
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 qtl.
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.
protr
protr's feature set is finished; the work now is surviving Bioconductor's churn.
seriation
seriation stopped shipping algorithms and started shipping a way to pick between them.
arulesViz
arulesViz finished its move to ggplot2 and has been coasting on maintenance since.
See all filearray alternatives → · See all qtl alternatives →
Recent activity from filearray and qtl
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 2mo agofilearraySegfault on out-of-bound margins fixed
- 8mo agoqtlRemove R_ext/PrtUtil.h include flagged by CRAN
- 8mo agoqtlClearer cim() error when multiple phenotypes are passed
- 1y agoqtlC memory calls migrated to R_Calloc/R_Realloc/R_Free
- 2y agoqtlFix Rprintf call and remaining compiler warnings
- 2y agoqtlFix summary.scanone() thresholds and csvs phenotype reading
- 3y agofilearrayLazy operator evaluation and macOS parallelism
- 3y agoqtlFix addint()/addcovarint() with X chromosome QTL and missing phenotypes
- 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
Frequently asked questions
What is the difference between filearray and qtl?
They serve adjacent needs but don't currently overlap on shipped themes. filearray and qtl 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 qtl?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. filearray and qtl 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 qtl?
Top qtl alternatives in Analytics are ranked by recent ship velocity. Browse the "qtl alternatives" section above for the current picks, or visit /alternatives/qtl-r for the full list with editorial commentary on each.