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Pull requests: khanlab/SPIMquant

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Pull requests list

Support per-subject _SPIM.json overrides for orientation and stain channels
#171 opened May 28, 2026 by Copilot AI • Draft
@akhanf
Add atlas annotation rule for vessel nodes parquet
#170 opened May 21, 2026 by Copilot AI Loading…
@akhanf
Add vessel-graph connected-component labeling and node annotation rule
#169 opened May 18, 2026 by Copilot AI • Draft
@akhanf
1
Add batch-wide histogram aggregation, Multi-Otsu thresholding, and QC sweep report
#157 opened Apr 10, 2026 by Copilot AI • Draft
@akhanf
Add per-subject bias-corrected intensity histogram QC
#156 opened Apr 10, 2026 by Copilot AI • Draft
@akhanf
Add group-level Otsu thresholding (groupotsu+k{}i{} seg method)
#155 opened Apr 10, 2026 by Copilot AI • Draft
1
@akhanf
Add --direct_biasfield option for bias field correction without downsample/upsample cycle
#149 opened Apr 5, 2026 by Copilot AI • Draft
@akhanf
Add --via-template option for multi-step template registration
#148 opened Apr 5, 2026 by Copilot AI • Draft
@akhanf
Refactor group analysis CLI: replace contrast_column/values with formula-based model + pairwise contrasts
#147 opened Apr 5, 2026 by Copilot AI • Draft
1
@akhanf
Bump prefix-dev/setup-pixi from 0.9.4 to 0.9.6 in the dependencies group across 1 directory dependencies Pull requests that update a dependency file github_actions Pull requests that update GitHub Actions code
#142 opened Apr 1, 2026 by dependabot Bot Loading…
Add dask-cuda LocalCUDACluster support and VesselFM benchmark rule
#128 opened Mar 10, 2026 by Copilot AI • Draft
@akhanf
1
WIP - initial stardist test
#75 opened Dec 5, 2025 by akhanf Member • Draft
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