Skip to content
Navigation Menu
Sign in
Appearance settings
Platform
AI CODE CREATION
GitHub Copilot
Write better code with AI
GitHub Copilot app
Direct agents from issue to merge
MCP Registry
Integrate external tools
DEVELOPER WORKFLOWS
Actions
Automate any workflow
Codespaces
Instant dev environments
Issues
Plan and track work
Code Review
Manage code changes
Code Quality
Enforce quality at merge
APPLICATION SECURITY
GitHub Advanced Security
Find and fix vulnerabilities
Code security
Secure your code as you build
Secret protection
Stop leaks before they start
EXPLORE
Why GitHub
Documentation
Blog
Changelog
Marketplace
View all features
Solutions
BY COMPANY SIZE
Enterprises
Small and medium teams
Startups
Nonprofits
BY USE CASE
App Modernization
DevSecOps
DevOps
CI/CD
View all use cases
BY INDUSTRY
Healthcare
Financial services
Manufacturing
Government
View all industries
View all solutions
Resources
EXPLORE BY TOPIC
AI
Software Development
DevOps
Security
View all topics
EXPLORE BY TYPE
Customer stories
Events & webinars
Ebooks & reports
Business insights
GitHub Skills
SUPPORT & SERVICES
Documentation
Customer support
Community forum
Trust center
Partners
View all resources
Open Source
COMMUNITY
GitHub Sponsors
Fund open source developers
PROGRAMS
Security Lab
Maintainer Community
Accelerator
GitHub Stars
Archive Program
REPOSITORIES
Topics
Trending
Collections
Enterprise
ENTERPRISE SOLUTIONS
Enterprise platform
AI-powered developer platform
AVAILABLE ADD-ONS
GitHub Advanced Security
Enterprise-grade security features
Copilot for Business
Enterprise-grade AI features
Premium Support
Enterprise-grade 24/7 support
Pricing
Search
/
Sign in
Sign up
Appearance settings
You signed in with another tab or window.
Reload
to refresh your session.
You signed out in another tab or window.
Reload
to refresh your session.
You switched accounts on another tab or window.
Reload
to refresh your session.
Dismiss alert
{{ message }}
Uh oh!
There was an error while loading.
Please reload this page
.
openproblems-bio
/
task_spatial_segmentation
Public
Notifications
You must be signed in to change notification settings
Fork
4
Star
6
Code
Issues
10
Pull requests
9
Actions
Projects
Security and quality
0
Insights
Additional navigation options
Code
Issues
Pull requests
Actions
Projects
Security and quality
Insights
Segger
- #46
#46
Merged
rcannood
merged 21 commits into
main
openproblems-bio/task_spatial_segmentation:main
from
segger
openproblems-bio/task_spatial_segmentation:segger
Copy head branch name to clipboard
May 19, 2026
Conversation
Commits
21
(21)
Checks
Files changed
Merged
Segger
#46
rcannood
merged 21 commits into
main
openproblems-bio/task_spatial_segmentation:main
from
segger
openproblems-bio/task_spatial_segmentation:segger
Copy head branch name to clipboard
Commits
Commits on May 18, 2026
Keep vendor cell_id in spatial_unlabelled as a segmentation prior
Show description for da46c22
EliHei2
and
claude
committed
da46c22
View commit details
Copy full SHA for da46c22
Browse repository at this point
Add segger method component
Show description for a36fb57
EliHei2
and
claude
committed
a36fb57
View commit details
Copy full SHA for a36fb57
Browse repository at this point
Apply suggestions from code review
Show description for c2a3268
rcannood
authored
c2a3268
View commit details
Copy full SHA for c2a3268
Browse repository at this point
Merge remote-tracking branch 'origin/main' into segger
rcannood
committed
b9c4803
View commit details
Copy full SHA for b9c4803
Browse repository at this point
Commits on May 19, 2026
Segger - use pytorch 25.04 instead of 26.02 as a base image (#33)
Show description for 3bc10ee
rcannood
authored
3bc10ee
View commit details
Copy full SHA for 3bc10ee
Browse repository at this point
Fix segger CI: replace cellpose min_size=-1 with 0 for NumPy 2.x
Show description for 5f74b6a
EliHei2
and
claude
committed
5f74b6a
View commit details
Copy full SHA for 5f74b6a
Browse repository at this point
Filter -1 / UNASSIGNED cell_id sentinels before rasterization
Show description for 1c10f12
EliHei2
and
claude
committed
1c10f12
View commit details
Copy full SHA for 1c10f12
Browse repository at this point
Align segger CLI flags with dpeerlab/segger@main
Show description for 11d203c
EliHei2
and
claude
committed
11d203c
View commit details
Copy full SHA for 11d203c
Browse repository at this point
Skip cudf driver validation on GPU-less runners
Show description for 770ca1b
EliHei2
and
claude
committed
770ca1b
View commit details
Copy full SHA for 770ca1b
Browse repository at this point
CPU stub-and-exit for segger + restore cuspatial install
Show description for b9ae3e5
EliHei2
and
claude
committed
b9ae3e5
View commit details
Copy full SHA for b9ae3e5
Browse repository at this point
Warn early when no CUDA GPU is detected for segger
Show description for d8765d3
EliHei2
and
claude
committed
d8765d3
View commit details
Copy full SHA for d8765d3
Browse repository at this point
Hard-fail segger when no CUDA GPU is available
Show description for 29d16d1
EliHei2
and
claude
committed
29d16d1
View commit details
Copy full SHA for 29d16d1
Browse repository at this point
Merge remote-tracking branch 'origin/main' into segger
rcannood
committed
6e0ccd7
View commit details
Copy full SHA for 6e0ccd7
Browse repository at this point
bypass run test for segger
Show description for bbb5f30
rcannood
committed
bbb5f30
View commit details
Copy full SHA for bbb5f30
Browse repository at this point
add segger to wf
Show description for c520074
rcannood
committed
c520074
View commit details
Copy full SHA for c520074
Browse repository at this point
use different label
Show description for 8c8560a
rcannood
committed
8c8560a
View commit details
Copy full SHA for 8c8560a
Browse repository at this point
Merge remote-tracking branch 'origin/main' into segger
EliHei2
committed
b5da903
View commit details
Copy full SHA for b5da903
Browse repository at this point
Export segger's full per-cell footprint, boundaries, and per-cell table
Show description for 3c2e808
EliHei2
and
claude
committed
3c2e808
View commit details
Copy full SHA for 3c2e808
Browse repository at this point
Minimal label image for segger: pixel-paint per assigned transcript
Show description for 48aed73
EliHei2
and
claude
committed
48aed73
View commit details
Copy full SHA for 48aed73
Browse repository at this point
Set production defaults for --init_segmentation and --cellpose_diameter
Show description for 4b3ddc8
EliHei2
and
claude
committed
4b3ddc8
View commit details
Copy full SHA for 4b3ddc8
Browse repository at this point
Switch segger raster to cKDTree-Voronoi for filled cell masks
Show description for 49b7938
EliHei2
and
claude
committed
49b7938
View commit details
Copy full SHA for 49b7938
Browse repository at this point
You can’t perform that action at this time.
