pr2database
The protist reference database keeps widening past the rRNA gene it was built on.
Comparison · Infra & APIs
multimark vs valr
A side-by-side editorial comparison of multimark and valr — release velocity, themes, recent moves, and the top alternatives to consider.
multimark vs valr: at a glance
What is multimark?
Five years of compiler and CRAN fixes on a capture-recapture package.
multimark fits capture-mark-recapture models for populations sampled with multiple non-invasive marks, including a spatial variant. Nothing in the visible history changes the models. Every recent release responds to something outside the package: a CRAN check, a compiler flag, or an upstream package that stopped exporting a function.
What is valr?
valr's interval verbs now read genomic files in place instead of demanding a loaded tibble.
valr reimplements bedtools-style genome interval arithmetic as tidyverse verbs backed by C++. Its long project has been closing the behavioural gap with bedtools — the book-ended interval semantics finally match in 0.10.0, three releases after the deprecation began. The July release also ends the assumption that intervals must be in memory: bed_map(), bed_intersect(), bed_subtract(), bed_coverage() and bed_window() accept a bigWig or bigBed path or URL where an interval table used to go.
multimark vs valr: editorial side-by-side
multimark
0.0INFRA · APIS
Five years of compiler and CRAN fixes on a capture-recapture package.
◆ Current state
multimark fits capture-mark-recapture models for populations sampled with multiple non-invasive marks, including a spatial variant. Nothing in the visible history changes the models. Every recent release responds to something outside the package: a CRAN check, a compiler flag, or an upstream package that stopped exporting a function.
◆ Where it's heading
This is preservation rather than development. The one substantive entry, in 2021, corrected an MCMC error in multimarkClosedSCR() serious enough that the author told users to revisit past analyses; everything since has been keeping the C code compiling across platforms. Release intervals now stretch to years.
◆ Prediction
Expect the pattern to hold, with a release whenever a toolchain or upstream dependency forces one and no change to the samplers.
valr
0.0INFRA · APIS
valr's interval verbs now read genomic files in place instead of demanding a loaded tibble.
◆ Current state
valr reimplements bedtools-style genome interval arithmetic as tidyverse verbs backed by C++. Its long project has been closing the behavioural gap with bedtools — the book-ended interval semantics finally match in 0.10.0, three releases after the deprecation began. The July release also ends the assumption that intervals must be in memory: bed_map(), bed_intersect(), bed_subtract(), bed_coverage() and bed_window() accept a bigWig or bigBed path or URL where an interval table used to go.
◆ Where it's heading
Two arcs converge here. One is compatibility: min_overlap arrived with a deprecation warning in 0.9.0 and its default flipped from 0 to 1 in 0.10.0, so book-ended intervals are excluded by default as bedtools does, with the internal calculations in bed_closest() and friends deliberately left counting them. The other is the file-backed path, which grew out of the cpp11bigwig dependency adopted in 0.8.3 for read_bigwig() and re-exported in 0.9.0 — reading a file became querying one. Underneath, the C++ base keeps getting lighter: Rcpp swapped for cpp11, rlang cut to a single function, per-group memory copies removed from three verbs.
◆ Prediction
Only five verbs take a file argument today and bed_closest(), bed_glyph() and the statistical verbs do not, so extending the file-backed path across the rest of the API is the obvious follow-up. The deprecated tibble re-exports and the now-defunct n_fields argument suggest continued removal of the compatibility layer in the next minor release.
Alternatives to multimark and valr
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 multimark or valr.
ggalign
Composable aligned layouts, rebuilt on S7 while ggplot2 4.0 lands underneath.
prioritizr
Conservation planning absorbs the literature's target-setting rules as code.
jSDM
Joint species distribution models in Gibbs-sampled C++, quiet since 2023.
rsofun
An ecosystem model starts tracking carbon isotopes and land-use change.
usmap
Ten years in, US mapping splits its data out and finally adds Puerto Rico.
See all multimark alternatives → · See all valr alternatives →
Recent activity from multimark and valr
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 1mo agovalrInterval verbs read bigWig and bigBed files directly ⚡
- 7mo agovalrbed_slop() and bed_flank() preserve input row order
- 8mo agovalrmin_overlap introduced; C++ backend moves from Rcpp to cpp11
- 8mo agomultimarkBrobdingnag sum import dropped after upstream removal
- 1y agovalrTest updated for ggplot2 3.6.0
- 1y agovalrread_bigwig() switches to cpp11bigwig; read_gtf() deprecated
- 1y agovalrCRAN Rd link NOTE and maintainer email change
- 3y agomultimarkr-devel error fixed at CRAN's request
- 3y agomultimarkLinux compilation warnings cleared
- 4y agomultimarkFedora build error fixed at CRAN's request
- 4y agomultimarkMCMC detection-probability bug fixed in multimarkClosedSCR()
- 4y agomultimarkUnused parallelism dependencies removed
Frequently asked questions
What is the difference between multimark and valr?
They serve adjacent needs but don't currently overlap on shipped themes. multimark and valr 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 multimark better than valr?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. multimark and valr 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 multimark?
Top multimark alternatives in Infra & APIs are ranked by recent ship velocity. Browse the "multimark alternatives" section above for the current picks, or visit /alternatives/multimark for the full list with editorial commentary on each.
What are the best alternatives to valr?
Top valr alternatives in Infra & APIs are ranked by recent ship velocity. Browse the "valr alternatives" section above for the current picks, or visit /alternatives/valr for the full list with editorial commentary on each.