Issues

• GitHub docs are out of sync with R package docs

  edward130603/BayesSpace#164 · Filter by author lcolladotor opened on Aug 18, 2026

• aes_() was deprecated in ggplot2 3.0.0

  edward130603/BayesSpace#163 · Filter by author lcolladotor opened on Aug 14, 2026

• Benchmarked BayesSpace versions 1.5.1 (or equivalent ones up to 1.14.0 from Bioconductor) using joint-clustering against the latest version

  edward130603/BayesSpace#162 · Filter by author lcolladotor opened on Aug 10, 2026
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• Request to add a warning if more neighbors than expected are found

  edward130603/BayesSpace#161 · Filter by author lcolladotor opened on Aug 10, 2026

• GitHub and Bioconductor versions are slightly out of sync

  edward130603/BayesSpace#160 · Filter by author lcolladotor opened on Aug 10, 2026

• Bioconductor's documentation is not in sync with GitHub's docs

  edward130603/BayesSpace#159 · Filter by author lcolladotor opened on Aug 10, 2026

• Adaptation to different sequencing platform with circular spot design

  edward130603/BayesSpace#158 · Filter by author eray-sahin opened on Feb 10, 2026

• I cannot use getRDS

  edward130603/BayesSpace#153 · Filter by author zsdadisscy opened on Nov 5, 2025
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• Major differences in cluster assignment between 1.5.1 and 1.16.0

  edward130603/BayesSpace#150 · Filter by author bgkresge opened on Aug 15, 2025
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• subscript contains invalid names

  edward130603/BayesSpace#149 · Filter by author lim663094-gif opened on Aug 13, 2025

• Error: subscript contains invalid names

  edward130603/BayesSpace#148 · Filter by author Tycooner opened on Jul 27, 2025

• ssGSEA score

  edward130603/BayesSpace#143 · Filter by author mezarelab opened on Apr 9, 2025

• Neighbors were identified for 0 out of 3639 spots

  edward130603/BayesSpace#141 · Filter by author zcliu0111 opened on Mar 16, 2025

• Clusters with no cells

  edward130603/BayesSpace#140 · Filter by author aelhossiny opened on Feb 3, 2025

• BayesSpace featurePlot error

  edward130603/BayesSpace#138 · Filter by author mloberg16 opened on Jan 28, 2025
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• SpatialFeatureExperiment method

  edward130603/BayesSpace#136 · Filter by author lambdamoses opened on Jan 9, 2025
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• Are q-tune log likelihoods comparable between different inputs?

  edward130603/BayesSpace#135 · Filter by author lahuuki opened on Nov 27, 2024
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• Comments on PR #111 + sharing trick we used for overlapping spots from overlapping capture areas

  edward130603/BayesSpace#131 · Filter by author lcolladotor opened on Aug 15, 2024
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• github install issue

  edward130603/BayesSpace#130 · Filter by author edward130603 opened on Aug 12, 2024
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• error with SpatialEnhance

  edward130603/BayesSpace#129 · Filter by author laetitiacollet opened on Aug 2, 2024
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• Citation info is outdated

  edward130603/BayesSpace#128 · Filter by author lcolladotor opened on Jul 30, 2024

• wrong when spatialCluster(Neighbors were identified for 0 out of 2696 spots)

  edward130603/BayesSpace#127 · Filter by author PepsiZhu opened on Jul 7, 2024
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• Error when load data by readVisium

  edward130603/BayesSpace#126 · Filter by author hannshu opened on Jun 27, 2024
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• BayesSpace's compatibility with Imaging-based ST

  edward130603/BayesSpace#125 · Filter by author rocketeer1998 opened on Jun 24, 2024

• seurat_cluster_DE function

  edward130603/BayesSpace#123 · Filter by author mtrussart opened on May 7, 2024
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