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SpatialArtifacts

Bioc current

Identification and Classification of Spatial Artifacts in Visium and Visium HD Data

v1.0.0 · software · Artistic-2.0
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Release Lineage

Entered 3.23 · Apr 29, 2026

Current · Requires R 4.6

1.0 In 1 of 49 releases 3.23

Description

SpatialArtifacts provides a data-driven two-step workflow to identify, classify, and handle spatial artifacts in spatial transcriptomics data. The package combines median absolute deviation (MAD)-based outlier detection with morphological image processing (fill, outline, and star patterns) to detect edge and interior artifacts. It supports multiple platforms including 10x Genomics Visium (standard and HD), allowing for consistent quality control across different spatial resolutions.

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Topics

Software
Software › Technology › Spatial
Software › ResearchField › Transcriptomics
Software › WorkflowStep › QualityControl
Software › Infrastructure › DataImport
Software › WorkflowStep
Software › StatisticalMethod › Classification

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