paleobuddy
paleobuddy can now simulate trait-dependent diversification, not just birth-death.
Comparison · Analytics
hstats vs qtl
A side-by-side editorial comparison of hstats and qtl — release velocity, themes, recent moves, and the top alternatives to consider.
hstats vs qtl: at a glance
What is hstats?
hstats settled into maintenance after its 1.0 restructuring, with model coverage the only thing still growing.
hstats computes Friedman's H-statistics, partial dependence, ICE curves and permutation importance for any model exposing a prediction function. The releases in view are consolidation: performance work on plain data.frames, ICE facetting for multioutput models, ranger survival support, and a ggplot 4.0 compatibility pass in 2025. The package moved to the ModelOriented organisation in 1.2.0.
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.
hstats vs qtl: editorial side-by-side
hstats
0.0ANALYTICS
hstats settled into maintenance after its 1.0 restructuring, with model coverage the only thing still growing.
◆ Current state
hstats computes Friedman's H-statistics, partial dependence, ICE curves and permutation importance for any model exposing a prediction function. The releases in view are consolidation: performance work on plain data.frames, ICE facetting for multioutput models, ranger survival support, and a ggplot 4.0 compatibility pass in 2025. The package moved to the ModelOriented organisation in 1.2.0.
◆ Where it's heading
The structural work — the hstats_matrix object, quantile approximation, revised plotting — landed in 1.0.0 just outside this window, and nothing since has changed the package's shape. What continues is model-coverage plumbing: mlr3 classification modes, ranger survival behind a survival argument, and factor predictions added in 1.1.0 then removed again in 1.2.0. The most recent releases are compatibility-driven, tracking ggplot2 rather than the interaction statistics.
◆ Prediction
Expect the next release to be another dependency-compatibility pass or a new model backend working out of the box, rather than new interaction statistics.
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 hstats 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 hstats or qtl.
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 hstats and qtl
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 8mo agoqtlRemove R_ext/PrtUtil.h include flagged by CRAN
- 8mo agoqtlClearer cim() error when multiple phenotypes are passed
- 10mo agohstatsggplot 4.0 compatibility and test coverage
- 1y agoqtlC memory calls migrated to R_Calloc/R_Realloc/R_Free
- 1y agohstatsranger survival models supported out of the box
- 2y agohstatsMoves to ModelOriented; factor predictions removed
- 2y agohstatsICE facets for multioutput models; mlr3 fixes
- 2y agohstatsFaster data.frame paths; NaN H-statistics fixed
- 2y agoqtlFix Rprintf call and remaining compiler warnings
- 2y agoqtlFix summary.scanone() thresholds and csvs phenotype reading
- 2y agohstatsFactor predictions and line-style 2D partial dependence
- 3y agoqtlFix addint()/addcovarint() with X chromosome QTL and missing phenotypes
Frequently asked questions
What is the difference between hstats and qtl?
They serve adjacent needs but don't currently overlap on shipped themes. hstats 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 hstats better than qtl?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. hstats 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 hstats?
Top hstats alternatives in Analytics are ranked by recent ship velocity. Browse the "hstats alternatives" section above for the current picks, or visit /alternatives/hstats 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.