cmdstanr
cmdstanr keeps adding fast approximations beside full HMC, and fighting Windows toolchains.
Comparison · Analytics
scales vs Seurat
A side-by-side editorial comparison of scales and Seurat — release velocity, themes, recent moves, and the top alternatives to consider.
scales vs Seurat: at a glance
What is scales?
scales keeps widening what ggplot2 can put on an axis.
scales supplies the breaks, labels and transformations behind ggplot2's axes and legends. Unlike much of the tidyverse infrastructure around it, it still ships genuine feature work each release: native timespan handling in 1.3.0, then custom range-training classes and label_glue() in 1.4.0.
What is Seurat?
Seurat's centre of gravity has moved from single cells to spatial data and on-disk matrices
Seurat is the dominant R toolkit for single-cell analysis, and the 5.x line reads as two ongoing projects. One is spatial: successive releases absorb each new 10x output format - Visium HD, Xenium protein data, Space Ranger 4.0 segmentations - and add plotting and selection tools for them. The other is scale, where BPCells on-disk matrices keep gaining support in functions that previously required everything in memory.
scales vs Seurat: editorial side-by-side
scales
0.0ANALYTICS
scales keeps widening what ggplot2 can put on an axis.
◆ Current state
scales supplies the breaks, labels and transformations behind ggplot2's axes and legends. Unlike much of the tidyverse infrastructure around it, it still ships genuine feature work each release: native timespan handling in 1.3.0, then custom range-training classes and label_glue() in 1.4.0.
◆ Where it's heading
The arc runs toward extensibility and type coverage. First came built-in support for awkward types like difftime and hms; 1.4.0 inverts that by letting any third-party class participate in range training simply by implementing range() or levels(). Labelling is getting more expressive rather than merely more numerous.
◆ Prediction
Expect continued type-support and labelling work, with extension points that let downstream packages plug in their own classes instead of scales enumerating every one.
Seurat
0.0ANALYTICS
Seurat's centre of gravity has moved from single cells to spatial data and on-disk matrices
◆ Current state
Seurat is the dominant R toolkit for single-cell analysis, and the 5.x line reads as two ongoing projects. One is spatial: successive releases absorb each new 10x output format - Visium HD, Xenium protein data, Space Ranger 4.0 segmentations - and add plotting and selection tools for them. The other is scale, where BPCells on-disk matrices keep gaining support in functions that previously required everything in memory.
◆ Where it's heading
Both projects are driven from outside. The spatial work tracks whatever 10x ships, which is why data loaders and coordinate handling get rewritten release after release; the BPCells work tracks dataset sizes that no longer fit in RAM. Clustering and dimensionality reduction, the parts Seurat actually owns, change mainly by exposing more of uwot's and igraph's options rather than by new method development.
◆ Prediction
Expect the next release to absorb whatever instrument output 10x publishes next, and BPCells support to keep spreading into the functions that still densify matrices; the interactive spatial selection tooling looks like the one area with room to grow on its own terms.
Alternatives to scales and Seurat
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 scales or Seurat.
comtradr
comtradr's 1.0 line is a long tail of patches against a brittle UN trade API.
billboarder
An htmlwidget whose release notes are mostly billboard.js version bumps, quiet since 2021.
bbotk
bbotk is generalizing from an optimizer toolkit into an evaluation framework.
bayesplot
bayesplot keeps widening its posterior-check catalogue while absorbing each ggplot2 break.
animation
Contribution-driven maintenance on a package whose last structural change was magick support.
See all scales alternatives → · See all Seurat alternatives →
Recent activity from scales and Seurat
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 1mo agoSeuratFixes zero-count genes in PrepSCTFindMarkers; UMAP init option
- 3mo agoSeuratBPCells gains regression support; ElbowPlot shows variance explained
- 8mo agoSeuratSpace Ranger 4.0 segmentations and interactive cell lasso ⚡
- 9mo agoSeuratXenium protein data; Leiden via igraph, UMAP via umap2
- 1y agoscalesscales 1.4.0 opens range training to custom classes
- 1y agoSeuratsctransform and leverage-score calculation refactored for speed
- 1y agoSeuratTest fix for cross-platform clustering variability
- 2y agoscalesscales 1.3.0 makes timespans first-class on axes
- 3y agoscalesscales 1.2.1 re-documents to fix .Rd HTML issues
- 4y agoscalesscales 1.2.0 fixes currency sign order and adds scale_cut
- 6y agoscalesscales 1.1.1 fixes palette inversion and adds oob_keep()
- 6y agoscalesscales 1.1.0 reorganises breaks and labels into a naming scheme
Frequently asked questions
What is the difference between scales and Seurat?
They serve adjacent needs but don't currently overlap on shipped themes. scales and Seurat 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 scales better than Seurat?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. scales and Seurat 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 scales?
Top scales alternatives in Analytics are ranked by recent ship velocity. Browse the "scales alternatives" section above for the current picks, or visit /alternatives/scales-r for the full list with editorial commentary on each.
What are the best alternatives to Seurat?
Top Seurat alternatives in Analytics are ranked by recent ship velocity. Browse the "Seurat alternatives" section above for the current picks, or visit /alternatives/seurat for the full list with editorial commentary on each.