EvoPhylo
EvoPhylo added BEAST2 alongside MrBayes, then went quiet for two years.
Comparison · Analytics
qtl vs xts
A side-by-side editorial comparison of qtl and xts — release velocity, themes, recent moves, and the top alternatives to consider.
Shared themes:maintenance
qtl vs xts: at a glance
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.
What is xts?
xts is finished software, and its releases now track R's C API more than user requests.
xts is the time-series class underpinning much of R's financial stack, and it behaves like infrastructure: the visible releases are bug fixes, plotting repairs and conformance work. A recurring thread is removing calls R no longer considers public — SET_TYPEOF in 0.14.0 and 0.14.1, then ATTRIB() and SET_ATTRIB() in 0.14.2. Feature additions are rare and small, the last cluster being open-ended time-of-day subsetting and na.fill performance in 0.13.0.
qtl vs xts: editorial side-by-side
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.
xts
0.0ANALYTICS
xts is finished software, and its releases now track R's C API more than user requests.
◆ Current state
xts is the time-series class underpinning much of R's financial stack, and it behaves like infrastructure: the visible releases are bug fixes, plotting repairs and conformance work. A recurring thread is removing calls R no longer considers public — SET_TYPEOF in 0.14.0 and 0.14.1, then ATTRIB() and SET_ATTRIB() in 0.14.2. Feature additions are rare and small, the last cluster being open-ended time-of-day subsetting and na.fill performance in 0.13.0.
◆ Where it's heading
Two forces drive releases. R core keeps narrowing its public C API, and xts keeps rewriting internals to stay inside it; separately, ggplot-era changes elsewhere in the ecosystem surface plotting bugs that get fixed one report at a time. Nearly every entry credits an outside reporter, which is what maintenance of a dependency this widely used looks like.
◆ Prediction
Further C API conformance work is the safest expectation, since two consecutive releases have each removed a different non-API entry point and R has continued tightening that boundary.
Alternatives to qtl and xts
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 qtl or xts.
treespace
treespace ships once every year or two, and only when CRAN or a user forces it.
Rpath
Rpath 1.1.0 learns to read Ecopath's own files, easing migration off the desktop tool.
TAF
TAF keeps turning ICES stock assessments into reproducible, dependency-pinned projects.
parallelDist
parallelDist is in pure preservation mode — one build fix every few years.
cairo
Cairo finally catches R's graphics engine, all the way to GE API 16.
Recent activity from qtl and xts
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 5mo agoxtsmulti.panel plots beyond 8 columns; SET_TYPEOF removed from C
- 5mo agoxtsATTRIB removed from C; rollapply.xts accepts vector widths
- 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 agoxtsMulti-panel event lines; first SET_TYPEOF replacement
- 2y agoxtstclass changes now alter index values; log-scale y-axis added
- 2y agoqtlFix Rprintf call and remaining compiler warnings
- 2y agoqtlFix summary.scanone() thresholds and csvs phenotype reading
- 3y agoqtlFix addint()/addcovarint() with X chromosome QTL and missing phenotypes
- 3y agoxtsUpdate path for pre-0.12 objects missing index attributes
- 3y agoxtsOpen-ended time-of-day subsetting; fast scalar na.fill
Frequently asked questions
What is the difference between qtl and xts?
Both compete on the same themes — maintenance — within Analytics. qtl and xts 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 qtl better than xts?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. qtl and xts 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 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.
What are the best alternatives to xts?
Top xts alternatives in Analytics are ranked by recent ship velocity. Browse the "xts alternatives" section above for the current picks, or visit /alternatives/xts-r for the full list with editorial commentary on each.