mrbayes
mrbayes spent 2026 auditing its own Bayesian MR estimators for coding errors.
Comparison · Analytics
cfrnow vs vegan
A side-by-side editorial comparison of cfrnow and vegan — release velocity, themes, recent moves, and the top alternatives to consider.
cfrnow vs vegan: at a glance
What is cfrnow?
A Bayesian real-time CFR estimator that now ships stratified fits and posterior-predictive checks
cfrnow estimates case fatality ratios from line-list data while an outbreak is still running, using a Bayesian mixture-cure survival model registered as an `epidist` model type. Three releases in a month took it from first public release to stratified, partially-pooled fits with posterior-predictive checking. It leans on `distspec` for delay parameterisation, which reached CRAN alongside the 0.2.1 patch.
What is vegan?
Community ecology's standard toolkit is retiring the functions a generation of scripts was built on.
vegan is the reference R package for ordination and diversity analysis in community ecology. The 2.7 line redesigned constrained ordination graphics from scratch, made adonis defunct in favor of adonis2, and moved permutation tests for partial RDA and db-RDA onto residualized predictors. The current 2.7-5 release is stabilization — parallel processing on Windows, ggvegan compatibility for tidy scores, and arrow label placement.
cfrnow vs vegan: editorial side-by-side
cfrnow
5.0ANALYTICS
A Bayesian real-time CFR estimator that now ships stratified fits and posterior-predictive checks
◆ Current state
cfrnow estimates case fatality ratios from line-list data while an outbreak is still running, using a Bayesian mixture-cure survival model registered as an `epidist` model type. Three releases in a month took it from first public release to stratified, partially-pooled fits with posterior-predictive checking. It leans on `distspec` for delay parameterisation, which reached CRAN alongside the 0.2.1 patch.
◆ Where it's heading
The arc runs from producing a single corrected CFR number toward supporting a full model-checking workflow. 0.2.0 added the pieces a modeller needs to defend an estimate: replicate line lists replayed through the real-time truncation, an ascertainment-ratio correction for when fatal and non-fatal cases enter the line list at different rates, and per-group CFRs from `brms` formulas. Delay coverage widened from LogNormal and Gamma to Weibull in the same release.
◆ Prediction
Expect the next release to keep widening covariate and pooling support rather than adding new outcome types, since every 0.2.0 addition extended the existing formula interface instead of replacing it.
vegan
0.0ANALYTICS
Community ecology's standard toolkit is retiring the functions a generation of scripts was built on.
◆ Current state
vegan is the reference R package for ordination and diversity analysis in community ecology. The 2.7 line redesigned constrained ordination graphics from scratch, made adonis defunct in favor of adonis2, and moved permutation tests for partial RDA and db-RDA onto residualized predictors. The current 2.7-5 release is stabilization — parallel processing on Windows, ggvegan compatibility for tidy scores, and arrow label placement.
◆ Where it's heading
Two long deprecation programs are converging. Plotting is being pushed out of the package: lattice functions are deprecated in favor of ggplot2 equivalents now living in ggvegan, a separate CRAN package, while vegan's own base graphics were rebuilt around independently configurable score types and pipe-based construction. Meanwhile the statistical core is being made internally consistent — add1 and drop1 no longer use different internal models, and summary is no longer an accepted route to ordination scores.
◆ Prediction
Expect the remaining lattice functions to go defunct and more plotting responsibility to shift to ggvegan, leaving vegan as the statistical engine with a thin base graphics layer.
Alternatives to cfrnow and vegan
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 cfrnow or vegan.
lineup2
lineup2 ships once every few years, and 2026's release is a logo and a core-count tweak.
stringi
stringi has spent two years on build hardening since its Unicode 15.1 reset.
OHPL
A 2017 chemometrics method frozen in place, visited only when CRAN changes its documentation rules.
fastplyr
A fast dplyr stand-in that keeps finding new places to skip work entirely.
trias
Belgium's invasive-species indicator toolkit is in steady refinement, one plotting edge case at a time.
See all cfrnow alternatives → · See all vegan alternatives →
Recent activity from cfrnow and vegan
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 5d agocfrnowdistspec dependency moves to CRAN
- 5d agocfrnowStratified CFR fits, Weibull delays, posterior-predictive checks
- 1mo agocfrnowFirst release: real-time CFR from a Bayesian mixture-cure model ⚡
- 2mo agoveganParallel processing stabilized, especially on Windows
- 5mo agoveganLattice plotting deprecated as ggvegan reaches CRAN
- 10mo agoveganPartial RDA permutation tests adopt residualized predictors
- 1y agoveganOrdination graphics rebuilt and adonis made defunct ⚡
- 1y agoveganRelease chasing undefined behavior in a C function
- 1y agoveganpca, ca and pco added for unconstrained ordination
Frequently asked questions
What is the difference between cfrnow and vegan?
They serve adjacent needs but don't currently overlap on shipped themes. cfrnow is currently shipping more aggressively (velocity 5.0 vs 0.0), with 0 editorial sparks in the last 30 days against 0. See the at-a-glance table above for a side-by-side breakdown of velocity, recent sparks, and editorial themes.
Is cfrnow better than vegan?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. cfrnow is currently shipping more aggressively (velocity 5.0 vs 0.0), with 0 editorial sparks in the last 30 days against 0. For your specific use case, the alternatives sections above list other Analytics products to evaluate alongside.
What are the best alternatives to cfrnow?
Top cfrnow alternatives in Analytics are ranked by recent ship velocity. Browse the "cfrnow alternatives" section above for the current picks, or visit /alternatives/cfrnow for the full list with editorial commentary on each.
What are the best alternatives to vegan?
Top vegan alternatives in Analytics are ranked by recent ship velocity. Browse the "vegan alternatives" section above for the current picks, or visit /alternatives/vegan-r for the full list with editorial commentary on each.