Skip to content

Issues: gerlichlab/looptrace

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

151 Open 185 Closed
151 Open 185 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Track/store reindexed trace ID (for each FOV or (FOV, trace group) value) enhancement New feature or request visualisation
#407 opened Dec 19, 2024 by vreuter v0.12
@vreuter
Track/store the reindexed (0-based) locus timepoints (per FOV or (FOV, trace group) combination) enhancement New feature or request visualisation
#406 opened Dec 19, 2024 by vreuter v0.12
@vreuter
Deprecate empirical point-spread function (PSF) determination configuration documentation Improvements or additions to documentation
#405 opened Dec 19, 2024 by vreuter
3 tasks
v0.13
@vreuter
Visualisation of tracing structures enhancement New feature or request visualisation
#404 opened Dec 7, 2024 by vreuter v0.13
@vreuter
Switching to TetraSpeck beads umbrella
#403 opened Dec 6, 2024 by vreuter
2 tasks
v0.13
@vreuter
Changes to locus spot visualisation enhancement New feature or request umbrella visualisation
#402 opened Dec 6, 2024 by vreuter
4 tasks
v0.12
@vreuter
Apply proximity filter between beads and FISH spots enhancement New feature or request
#401 opened Dec 6, 2024 by vreuter v0.13
@vreuter
Mask out TetraSpeck beads with nucler regions enhancement New feature or request
#400 opened Dec 6, 2024 by vreuter v0.13
@vreuter
Prioritise trace group/structure name and locus timepoints for sorting records in locus pairwise distances enhancement New feature or request likely solved
#396 opened Dec 2, 2024 by vreuter
2 tasks done
v0.12
@vreuter
Test that no duplication of records is done in locus pairwise distances likely solved testing
#395 opened Dec 2, 2024 by vreuter v0.12
@vreuter
Restructuring data-driven tests for better encapsulation and less fragility good first issue Good for newcomers help wanted Extra attention is needed testing
#394 opened Dec 1, 2024 by vreuter
Add test that each timepoint to merge for tracing is regional likely solved testing
#393 opened Dec 1, 2024 by vreuter v0.12
@vreuter
Make the encounter of a pair of records with the same locus time within the same trace an error likely solved
#392 opened Nov 29, 2024 by vreuter
1 task done
v0.12
@vreuter
We could add a parameter for the minimum number of trace ID merge group members configuration enhancement New feature or request refactor
#389 opened Nov 28, 2024 by vreuter
2 tasks
v0.14
Prohibit multiple occurrences of the same group member in a trace ID/structure merger enhancement New feature or request likely solved priority high
#388 opened Nov 28, 2024 by vreuter
1 task done
v0.12
@vreuter
We could make trace ID merge behavior configurable on a per-group basis configuration enhancement New feature or request refactor
#387 opened Nov 28, 2024 by vreuter v0.14
We could add a parameter for the maximum number of trace ID merge group members brainstorming configuration enhancement New feature or request
#386 opened Nov 28, 2024 by vreuter v0.14
Overlap between locus timepoint groups corresponding to regional timepoints grouped for tracing merge should be prohibited likely solved
#384 opened Nov 28, 2024 by vreuter v0.12
@vreuter
Trace groups need to be named enhancement New feature or request likely solved refactor
#383 opened Nov 27, 2024 by vreuter v0.12
@vreuter
We need to track which structure / "trace group" ROIs are from enhancement New feature or request likely solved
#382 opened Nov 27, 2024 by vreuter
1 task done
v0.12
@vreuter
Compute cross-channel signal statistics for the _aggregate_ regions represented by different-timepoint mergers brainstorming enhancement New feature or request priority high question Further information is requested
#380 opened Nov 26, 2024 by vreuter v0.13
@vreuter @TLSteinacker @ines-prlesi
2
Consider producing cross-channel signal analysis in multiple forms enhancement New feature or request
#379 opened Nov 25, 2024 by vreuter v0.14
@vreuter
Remove regional spot timepoints from big "locus-specific" collection for signal analysis enhancement New feature or request
#376 opened Nov 24, 2024 by vreuter v0.13
Better encoding of what's imaged in each channel brainstorming configuration enhancement New feature or request
#375 opened Nov 20, 2024 by vreuter v0.14
@vreuter @TLSteinacker
@ines-prlesi @josephneos1010
1
Make distance threshold (proximity filtration, ROI merge) carry units enhancement New feature or request priority high refactor
#373 opened Nov 18, 2024 by vreuter v0.13
@vreuter
1
ProTip! no:milestone will show everything without a milestone.