n2kanalysis
n2kanalysis has spent eight years wiring INLA models to an S3 bucket.
Comparison · Analytics
deeptime vs mrbayes
A side-by-side editorial comparison of deeptime and mrbayes — release velocity, themes, recent moves, and the top alternatives to consider.
deeptime vs mrbayes: at a glance
What is deeptime?
A geologic-time plotting layer that outgrew time axes and became a geology rendering toolkit.
deeptime extends ggplot2 with geological time scales, radial deep-time coordinates and phylogeny-aware geoms, and since 2.0.0 it also renders standardized FGDC/USGS geologic patterns as ggplot2 fills. The current 2.4.0 release adds geom_text_clade() for labeling clades on radial phylogenies and repairs long-standing coord_trans_xy() and scale-placement edge cases.
What is mrbayes?
mrbayes spent 2026 auditing its own Bayesian MR estimators for coding errors.
mrbayes wraps Stan and JAGS implementations of Bayesian Mendelian randomization estimators — IVW, MR-Egger, radial Egger, and their multivariable forms. Most of the visible history is packaging work: dependency trimming, conditional examples so the package installs where JAGS will not compile, a maintainer handover. The 0.5.3 release in July 2026 breaks that pattern with a dense list of fixes inside the model code itself.
deeptime vs mrbayes: editorial side-by-side
deeptime
0.0ANALYTICS
A geologic-time plotting layer that outgrew time axes and became a geology rendering toolkit.
◆ Current state
deeptime extends ggplot2 with geological time scales, radial deep-time coordinates and phylogeny-aware geoms, and since 2.0.0 it also renders standardized FGDC/USGS geologic patterns as ggplot2 fills. The current 2.4.0 release adds geom_text_clade() for labeling clades on radial phylogenies and repairs long-standing coord_trans_xy() and scale-placement edge cases.
◆ Where it's heading
The package is converging on two jobs: being the canonical R renderer for stratigraphic drawing conventions, and keeping pace with ggplot2's own churn. A sustained deprecation program — gggeo_scale(), coord_geo_polar(), getScaleData(), now disparity_through_time() — is trimming the surface down to coord_geo(), coord_geo_radial() and the pattern functions. Roughly half of each recent release is ggplot2 4.0 compatibility work.
◆ Prediction
Expect disparity_through_time() and coord_geo_polar() to be removed outright in the next major version, and further geoms aimed at annotating radial phylogenies.
mrbayes
0.0ANALYTICS
mrbayes spent 2026 auditing its own Bayesian MR estimators for coding errors.
◆ Current state
mrbayes wraps Stan and JAGS implementations of Bayesian Mendelian randomization estimators — IVW, MR-Egger, radial Egger, and their multivariable forms. Most of the visible history is packaging work: dependency trimming, conditional examples so the package installs where JAGS will not compile, a maintainer handover. The 0.5.3 release in July 2026 breaks that pattern with a dense list of fixes inside the model code itself.
◆ Where it's heading
The package has moved from packaging upkeep into a correctness-audit phase. 0.5.3 fixes a hardcoded three-exposure loop in MVMR-Egger reporting, a broken joint-prior branch, a sigma parameterization error in radial Egger, and several prior specifications — the profile of a maintainer reading their own model files closely rather than responding to bug reports. Platform work continues underneath: an R 4.3.0 floor inherited through a transitive dependency chain, and segfault fixes on macOS ARM.
◆ Prediction
Expect further audit-driven patches to the remaining rjags and Stan model files rather than new estimators; the fixes in 0.5.3 cluster in the Egger variants, which suggests that is where the reading is still in progress.
Alternatives to deeptime and mrbayes
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 deeptime or mrbayes.
n1qn1c
A Fortran-descended optimizer got thread-safe, then found two flags that never worked.
ggstatsplot
ggstatsplot reached 1.0 by adding tests, having outsourced its statistics years ago.
collapse
collapse got a JSS paper and a 7x fmean speedup in the same release.
gtsummary
gtsummary is quietly rebuilding itself around analysis results data, one table verb at a time.
broadcast
broadcast is filling in NumPy-style array broadcasting for R, operator by operator.
See all deeptime alternatives → · See all mrbayes alternatives →
Recent activity from deeptime and mrbayes
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 1mo agodeeptimegeom_text_clade() labels clades on radial phylogenies
- 1mo agomrbayesEstimator audit fixes MVMR-Egger loops and radial Egger sigma
- 8mo agodeeptimeArgument renames for ggplot2 4.0 parity
- 8mo agodeeptimePattern code dictionary and time-scale theming
- 1y agodeeptimegeom_text_phylo() arrives with ggplot2 4 compatibility
- 1y agodeeptimeContrast-aware label colors across the built-in scales
- 1y agomrbayesMVMR rjags example gated on rjags being installed
- 1y agomrbayesExamples and tests skip when rstan or rjags is missing
- 1y agomrbayespkgdown site updated
- 1y agomrbayesHelper command added for installing JAGS
- 1y agomrbayesDependency surface trimmed; maintainer handover
- 1y agodeeptimeFGDC geologic patterns become ggplot2 fills ⚡
Frequently asked questions
What is the difference between deeptime and mrbayes?
They serve adjacent needs but don't currently overlap on shipped themes. deeptime and mrbayes 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 deeptime better than mrbayes?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. deeptime and mrbayes 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 deeptime?
Top deeptime alternatives in Analytics are ranked by recent ship velocity. Browse the "deeptime alternatives" section above for the current picks, or visit /alternatives/deeptime-r for the full list with editorial commentary on each.
What are the best alternatives to mrbayes?
Top mrbayes alternatives in Analytics are ranked by recent ship velocity. Browse the "mrbayes alternatives" section above for the current picks, or visit /alternatives/mrbayes for the full list with editorial commentary on each.