AllenNeuralDynamics/see-spot

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QC evaluation framework for HCR (spatial transcriptomics) spot intensity data from ophys-mfish projects. Interactive dashboard connected to Neuroglancer (javascript/python/Apache ECharts)

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Forks: 0
Open beginner issues: 0
Indexed issues: 8

Dominant language: Python
License: MIT
Last GitHub push: Apr 10, 2026
Latest indexed: Sep 13, 2026
Contributing guide: No contributing guide
Code of conduct: Code of conduct
Beginner labels: No beginner labels indexed
PR merge metrics: No merged PRs in 30d

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8 open issues indexed

mixing matrix heatmap labels unclear Open

AllenNeuralDynamics/see-spot#2 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Selected spots table columns and spot info pop up could be more specific and consistent Open

AllenNeuralDynamics/see-spot#3 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
dist and r value filtering doesnt seem to work / could be optimized Open

AllenNeuralDynamics/see-spot#4 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Ability to view mixed spot data Open

AllenNeuralDynamics/see-spot#5 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Ability to color spots by original channel instead of reassigned channel Open

AllenNeuralDynamics/see-spot#6 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
For future consideration - including coexpression heatmap for genes in reference dataset Open

AllenNeuralDynamics/see-spot#7 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
identify spatially overlapping spots Open

AllenNeuralDynamics/see-spot#8 · 0 comments · 0 reactions · 0 assignees · Indexed Sep 13, 2026
Update SeeSpot to use Independent Tile NG links Open

AllenNeuralDynamics/see-spot#11 · 0 comments · 0 reactions · 1 assignee · Indexed Sep 13, 2026

AllenNeuralDynamics/see-spot

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