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Feature Request: <code>assay</code> option for <code>FeaturePlot</code>

enhancementNew feature or requestNew feature or request

Status: Open.

#10268 In satijalab/seurat;

· assaron opened on Jan 7, 2026

BUG: Seurat v5.4.0 cannot load Visium V4 spacaranger output

bugSomething isn't workingSomething isn't working

Status: Open.

#10264 In satijalab/seurat;

· iaaka opened on Jan 5, 2026

BUG: Subsetting an integrated Seurat object creates invalid seurat object

bugSomething isn't workingSomething isn't working

Status: Open.

#10263 In satijalab/seurat;

· pobmmu opened on Jan 4, 2026

BUG: SCTransform in latest Seurat v5.4

bugSomething isn't workingSomething isn't working

Status: Open.

#10258 In satijalab/seurat;

· leqi0001 opened on Dec 23, 2025

BUG: CreateAssayObject forces dgCMatrix conversion on BPCells objects, hitting 2^31 entry limit

bugSomething isn't workingSomething isn't working

Status: Open.

#10256 In satijalab/seurat;

· sara-leka opened on Dec 20, 2025

BUG: seurat-wrappers::alra.R

bugSomething isn't workingSomething isn't working

Status: Open.

#10252 In satijalab/seurat;

· turkeyri opened on Dec 17, 2025

Error in merge() introduced in SeuratObject 5.3.0

bugSomething isn't workingSomething isn't working

Status: Open.

#10251 In satijalab/seurat;

· bbimber opened on Dec 17, 2025

BUG: FindClusters()'s RNA_snn_res.X has incorrect factor leveling

bugSomething isn't workingSomething isn't working

Status: Open.

#10249 In satijalab/seurat;

· jdrnevich opened on Dec 16, 2025

BUG: Incompatibility Issue between Seurat 5.4.0 and SeuratObject 5.3.0

bugSomething isn't workingSomething isn't working

Status: Open.

#10248 In satijalab/seurat;

· Anjaney10 opened on Dec 16, 2025

Documentation: Link to zebrafish ISH data broken

documentationError in documentationError in documentation

Status: Open.

#10247 In satijalab/seurat;

· wagnerrGH opened on Dec 16, 2025

<code>beta -&gt; v5.4.0</code>: Updating Seurat objects w/ Visium segmentations

Status: Open.

#10245 In satijalab/seurat;

· anashen opened on Dec 15, 2025

BUG: &lt;SpatialFeaturePlot(image.alpha = 0) still performs expensive image-related work (≈10× slower than point-only path)&gt;

bugSomething isn't workingSomething isn't working

Status: Open.

#10243 In satijalab/seurat;

· LeafLight opened on Dec 14, 2025