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Pull requests: czbiohub-sf/biahub

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Pull requests list

Replace create_empty_hcs_zarr with iohub's create_empty_plate
#215 opened Mar 12, 2026 by tayllatheodoro Loading…
1 task done
4
Pin iohub and waveorder to released versions
#214 opened Mar 10, 2026 by talonchandler Loading…
2
2
Beads registration: core module, graph matching, and optimize_matches enhancement New feature or request
#211 opened Mar 10, 2026 by tayllatheodoro Loading…
@tayllatheodoro
16
replace bash scripts with Hydra CLI
#207 opened Feb 28, 2026 by mattersoflight • Draft
1 of 3 tasks
Refactor registration
#203 opened Feb 24, 2026 by tayllatheodoro Loading…
8 of 20 tasks
Modularize biahub
#202 opened Feb 23, 2026 by mattersoflight Loading…
1 task done
19
feat: Integrate mantis-analysis-template as reusable pipeline templates
#200 opened Feb 18, 2026 by tayllatheodoro Loading…
@tayllatheodoro
Preserve zarr version in register command
#198 opened Feb 13, 2026 by mattersoflight Loading…
2
Added API Docs
#196 opened Dec 12, 2025 by srivarra Loading…
1
Generate mov cli from napari to mp4 enhancement New feature or request
#180 opened Nov 22, 2025 by tayllatheodoro Loading…
@tayllatheodoro
8
Added biahub convert
#178 opened Oct 29, 2025 by srivarra • Draft
1
1
Organelle segmentation
#176 opened Oct 23, 2025 by edyoshikun • Draft
1
starting a CLI to QC FOVs
#175 opened Oct 23, 2025 by mattersoflight • Draft
2
update claude config + README
#174 opened Oct 23, 2025 by mattersoflight • Draft
1
Tiling
#165 opened Oct 1, 2025 by srivarra • Draft
4
Protocol for neuromast registration
#164 opened Sep 28, 2025 by tayllatheodoro • Draft
3 tasks done
@tayllatheodoro
3
BiaHub Registration & Stabilization Refactoring
#162 opened Sep 23, 2025 by tayllatheodoro • Draft
@tayllatheodoro
1
Add execution time prints
#129 opened Aug 8, 2025 by tayllatheodoro Loading… Performance Optimization
4
Check Slurm Job logs status
#126 opened Aug 7, 2025 by tayllatheodoro • Draft
2 of 3 tasks
Pipeline Reliability
@tayllatheodoro
5
Compute per patch stats
#109 opened Jul 23, 2025 by edyoshikun • Draft Advanced Analysis
1
Updating the segmentation to use Cellpose SAM
#101 opened Jun 16, 2025 by edyoshikun Loading… Advanced Analysis
16
characterize-psf with larger datasets
#62 opened Mar 18, 2025 by talonchandler • Draft Advanced Analysis
1
1
Correct distortion as estimated with discorpy
#39 opened Feb 5, 2025 by ieivanov • Draft Advanced Analysis
Render 2D crops enhancement New feature or request
#32 opened Dec 19, 2024 by ziw-liu • Draft Data Infrastructure
ProTip! Updated in the last three days: updated:>2026-03-11.