TrendLSW
Wavelet trend estimation tightens the defaults it shipped with.
Comparison · Infra & APIs
BAS vs PEIMAN2
A side-by-side editorial comparison of BAS and PEIMAN2 — release velocity, themes, recent moves, and the top alternatives to consider.
BAS vs PEIMAN2: at a glance
What is BAS?
A Bayesian model-averaging package spending its 2.0 on memory, not methods.
BAS performs Bayesian variable selection and model averaging for linear and generalized linear models, sampling from a model space too large to enumerate. The visible history splits cleanly: 2023-2024 added sampling machinery — an adaptive independent MCMC sampler with Horvitz-Thompson estimation, hereditary-constraint counting — while 2.0.0 in late 2025 reworked how sampler output is allocated in C. The 2.0.2 patch is a PROTECT fix for rchk warnings.
What is PEIMAN2?
PEIMAN2 cut its annotation database loose from its release cycle without breaking CRAN.
PEIMAN2 does enrichment analysis over post-translational modifications, testing whether a protein list is enriched for particular PTMs against UniProt-derived annotations, with translation functions bridging to mass spectrometry workflows. Its answers are only as current as its bundled database, and until June that database could only be refreshed by releasing a new package version. Version 1.1.0 changes that.
BAS vs PEIMAN2: editorial side-by-side
BAS
0.0INFRA · APIS
A Bayesian model-averaging package spending its 2.0 on memory, not methods.
◆ Current state
BAS performs Bayesian variable selection and model averaging for linear and generalized linear models, sampling from a model space too large to enumerate. The visible history splits cleanly: 2023-2024 added sampling machinery — an adaptive independent MCMC sampler with Horvitz-Thompson estimation, hereditary-constraint counting — while 2.0.0 in late 2025 reworked how sampler output is allocated in C. The 2.0.2 patch is a PROTECT fix for rchk warnings.
◆ Where it's heading
Memory is the binding constraint and the releases say so directly. The hereditary-constraint counter, the GROW option, and the replacement of over-allocation with resizing all attack the same problem: n.models is a guess, and guessing high wastes memory on problems where few unique models are actually visited. The 2.0.0 work was additionally forced by R tightening its C API against non-API calls like SETLENGTH, a constraint every C-heavy CRAN package has been absorbing. Method development has been quiet since 1.7.x.
◆ Prediction
The 1.7.5 notes call the hereditary-constraint counting a first step and say future updates will cover other constraint types, including polynomials, which remain unhandled. That is the one concrete commitment in this history, though nothing since has returned to it.
PEIMAN2
0.0INFRA · APIS
PEIMAN2 cut its annotation database loose from its release cycle without breaking CRAN.
◆ Current state
PEIMAN2 does enrichment analysis over post-translational modifications, testing whether a protein list is enriched for particular PTMs against UniProt-derived annotations, with translation functions bridging to mass spectrometry workflows. Its answers are only as current as its bundled database, and until June that database could only be refreshed by releasing a new package version. Version 1.1.0 changes that.
◆ Where it's heading
The package has been moving from a fixed snapshot toward versioned, user-selectable data. Earlier releases updated the bundled database in place — 1.0.0 shipped the March 2025 version and said little else — which meant the annotation vintage was whatever the package version implied. Now update_peiman_database() downloads and caches external database files and UniProt PTM lists, enrichment workflows take a database_version argument, and the mass-spec translators take a ptmlist_version, so an analysis can pin a dated database rather than a package release. The CRAN-safe default is preserved deliberately: loading, examples and checks still use the bundled internal data and need no network.
◆ Prediction
Version pinning is now expressible but the release notes do not describe how a chosen version is recorded in output, so surfacing the active database version in results is the natural companion. The database and the UniProt PTM list are versioned separately, which leaves room for a combined manifest.
Alternatives to BAS and PEIMAN2
Other Infra & APIs 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 BAS or PEIMAN2.
mmpca
Back from CRAN removal under a new maintainer, with the compiled layer rebuilt.
mice
mice can finally predict, not just estimate, from multiply imputed data.
PINstimation
A market-microstructure toolkit that keeps adding estimators as the papers land.
nzilbb.vowels
A vowel-analysis package trimming dependencies after an email address got it archived.
emuR
The R half of the EMU speech database system, fixing what was quietly broken.
Recent activity from BAS and PEIMAN2
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 2mo agoPEIMAN2Database updates decouple from package releases ⚡
- 8mo agoBASBAS 2.0.2
- 8mo agoBASBAS 2.0.0
- 1y agoPEIMAN2Bundled database refreshed to the March 2025 UniProt vintage
- 1y agoPEIMAN2Documentation fix for the second example dataset
- 1y agoBASBAS 1.7.5
- 1y agoBASBAS 1.7.3
- 1y agoBASBAS 1.7.2
- 2y agoBASBAS 1.7.1
- 2y agoPEIMAN2Background lists for SEA and PSEA; tidyverse dependency dropped
Frequently asked questions
What is the difference between BAS and PEIMAN2?
They serve adjacent needs but don't currently overlap on shipped themes. BAS and PEIMAN2 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 BAS better than PEIMAN2?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. BAS and PEIMAN2 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 Infra & APIs products to evaluate alongside.
What are the best alternatives to BAS?
Top BAS alternatives in Infra & APIs are ranked by recent ship velocity. Browse the "BAS alternatives" section above for the current picks, or visit /alternatives/bas for the full list with editorial commentary on each.
What are the best alternatives to PEIMAN2?
Top PEIMAN2 alternatives in Infra & APIs are ranked by recent ship velocity. Browse the "PEIMAN2 alternatives" section above for the current picks, or visit /alternatives/peiman2 for the full list with editorial commentary on each.