paleobuddy
paleobuddy can now simulate trait-dependent diversification, not just birth-death.
Comparison · Analytics
pecan vs SimInf
A side-by-side editorial comparison of pecan and SimInf — release velocity, themes, recent moves, and the top alternatives to consider.
Shared themes:r-package
pecan vs SimInf: at a glance
What is pecan?
PEcAn v1.10 makes land-management events a first-class input and parallelises the whole SDA workflow
PEcAn is a workflow framework for ecosystem modelling — it standardises meteorological and initial-condition inputs, drives a set of coupled process models such as SIPNET, ED2, BioCro and LDNDC, and runs uncertainty analysis and state data assimilation over the results. Version 1.10.0 adds an events schema with validation and a SIPNET writer, so disturbance and management events can be declared in JSON and turned into model input, and runs the entire SDA workflow in parallel. It also adds CH4 and N2O to the standard variable table and an AmeriFlux meteorological ensemble path with ERA5 fallback.
What is SimInf?
SimInf 10.0 turns an epidemic simulator into a tool that fits models to real time series
SimInf simulates stochastic disease spread over networks of nodes, with a model parser that compiles user-specified transitions to C. Version 10.0.0 was a deliberate major break: the SimInf_pfilter S4 class and the bootstrap filtering interface were redesigned, a replicates slot was added to SimInf_model, a multi-particle variant of the split-step solver arrived, and the package gained Particle Markov Chain Monte Carlo fitting against observed time series. The follow-up 10.1.0 is a single zero-length memcpy fix found by CRAN's M1 checks.
pecan vs SimInf: editorial side-by-side
pecan
0.0ANALYTICS
PEcAn v1.10 makes land-management events a first-class input and parallelises the whole SDA workflow
◆ Current state
PEcAn is a workflow framework for ecosystem modelling — it standardises meteorological and initial-condition inputs, drives a set of coupled process models such as SIPNET, ED2, BioCro and LDNDC, and runs uncertainty analysis and state data assimilation over the results. Version 1.10.0 adds an events schema with validation and a SIPNET writer, so disturbance and management events can be declared in JSON and turned into model input, and runs the entire SDA workflow in parallel. It also adds CH4 and N2O to the standard variable table and an AmeriFlux meteorological ensemble path with ERA5 fallback.
◆ Where it's heading
Two directions are visible. The framework keeps widening what it can represent — more standard variables, more carbon pools in BADM-based initial conditions, more coupled models — and it keeps industrialising the parts that used to be manual, from automated package documentation to qsub job-array expansion to parallel assimilation. The events schema is the first of these that gives users a declarative input format rather than a function to call, which is a different kind of extension than adding another model coupling.
◆ Prediction
The events schema currently has one model writer, for SIPNET, so the obvious next step is writers for the other coupled models — otherwise the format only benefits a single backend of the several PEcAn drives.
SimInf
0.0ANALYTICS
SimInf 10.0 turns an epidemic simulator into a tool that fits models to real time series
◆ Current state
SimInf simulates stochastic disease spread over networks of nodes, with a model parser that compiles user-specified transitions to C. Version 10.0.0 was a deliberate major break: the SimInf_pfilter S4 class and the bootstrap filtering interface were redesigned, a replicates slot was added to SimInf_model, a multi-particle variant of the split-step solver arrived, and the package gained Particle Markov Chain Monte Carlo fitting against observed time series. The follow-up 10.1.0 is a single zero-length memcpy fix found by CRAN's M1 checks.
◆ Where it's heading
The package has been moving from simulation toward inference for several releases. The 9.x line built the input side — utilities for cleaning raw individual event data, variables and enumeration constants in the model parser — and 10.0.0 closed the loop by making the simulator fittable to data through PMCMC. The version number was incremented precisely because that required breaking the particle filter interface.
◆ Prediction
Fitting machinery this new usually needs a second pass on usability, so the next releases most likely focus on diagnostics and documentation around PMCMC rather than on the simulation core, which has been stable across the whole 9.x and 10.x history.
Alternatives to pecan and SimInf
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 pecan or SimInf.
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.
See all pecan alternatives → · See all SimInf alternatives →
Recent activity from pecan and SimInf
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 7mo agopecanEvents schema, parallel SDA workflow, CH4 and N2O standard variables ⚡
- 9mo agoSimInfAvoid memcpy on zero-length continuous state vector
- 9mo agoSimInfPMCMC fitting arrives; particle filter interface redesigned ⚡
- 1y agopecanAutomated pkgdown docs for all packages; qsub job-array support
- 1y agopecanLDNDC coupling, soilgrids carbon extraction, SDA observation prep
- 1y agopecanPFT-specific sensitivity analysis and BioCro 1.0 support
- 1y agopecanBioCro output renamed to PEcAn standard names; RCE fix
- 1y agopecanPEcAn.utils namespace cleanup; deprecated model2netcdf removed
- 2y agoSimInfDocumentation link anchors; parser dependency fix
- 2y agoSimInfModel parser gains variables and enumeration constants
- 2y agoSimInfindividual_events() added for raw event data cleaning
- 3y agoSimInfConfigure script uses R to locate the compiler
Frequently asked questions
What is the difference between pecan and SimInf?
Both compete on the same themes — r-package — within Analytics. pecan and SimInf 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 pecan better than SimInf?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. pecan and SimInf 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 pecan?
Top pecan alternatives in Analytics are ranked by recent ship velocity. Browse the "pecan alternatives" section above for the current picks, or visit /alternatives/pecan-r for the full list with editorial commentary on each.
What are the best alternatives to SimInf?
Top SimInf alternatives in Analytics are ranked by recent ship velocity. Browse the "SimInf alternatives" section above for the current picks, or visit /alternatives/siminf-r for the full list with editorial commentary on each.