Proprietario

AllenCell

20 repository indicizzati · Vedi su GitHub

vole-core
core rendering canvas and data loading services for Vol-E volume viewer

TypeScript · 106 stelle
agave
High quality visualization for volumetric image data

C++ · 62 stelle
aics-ml-segmentation

Python · 32 stelle
cyto-dl

Python · 32 stelle
aics-segmentation
Part 1 of Allen Cell and Structure Segmenter: classic image segmentation workflow

Jupyter Notebook · 26 stelle
cvapipe_analysis
Analysis of data produced by cvapipe for the variance paper

Jupyter Notebook · 24 stelle
aics-shparam

Python · 24 stelle
napari-allencell-segmenter
A plugin that enables image segmentation provided by Allen Institute for Cell Science

Python · 20 stelle
segmenter_model_zoo
scripts and API for running Deep Learning models from segmenter

Jupyter Notebook · 10 stelle
aics-cytoparam

Python · 7 stelle
benchmarking_representations
Benchmarking different methods for extracting unsupervised representations from images

Python · 7 stelle
allencell-segmenter-ml
Napari plugin for ml segmentation

Python · 5 stelle
endothelial-pipeline
Dynamics of ML-based morphological features indicate a shear stress-dependent bifurcation of hiPSC-derived endothelial cell states

Python · 2 stelle
cell-feature-explorer
Plot and explore data that is linked to images, with an embedded viewer

TypeScript · 2 stelle
EMT_data_analysis
This repo contains code for EMT deliverable data analysis and has dependencies associated with output from EMT_image_analysis repo.

Python · 1 stella
nuc-morph-analysis

Python · 0 stelle
camera-alignment-core
Core algorithms for alignment of two-camera microscopy imagery

Python · 0 stelle
cellpack-client
Frontend interface for cellPACK

TypeScript · 0 stelle
cell-catalog
Cell catalog 2.0

TypeScript · 0 stelle
idea-board

TypeScript · 0 stelle

Aperta Tutte

465 issue aperte indicizzate

TBD: Display result images from Prediction UI for on-screen image Aperta

medium priority UI/UX

AllenCell/allencell-segmenter-ml#276 · 1 commento · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
UX: Test if models are platform dependent Aperta

AllenCell/allencell-segmenter-ml#277 · 2 commenti · 0 reazioni · 2 assegnatari · Indicizzata il 13/9/2026
Remove Channel Selection from Training & Curation UI for V1 Aperta

UI/UX

AllenCell/allencell-segmenter-ml#278 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Model Selection: Show/Hide tab modules depends on the user's selection Aperta

🚨 high priority🚨 UI/UX

AllenCell/allencell-segmenter-ml#279 · 1 commento · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Curation UI: add a warning if user closes the plugin Aperta

medium priority UI/UX

AllenCell/allencell-segmenter-ml#280 · 1 commento · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Curation: generate test and validation csv Aperta

🚨 high priority🚨 needs clarification

AllenCell/allencell-segmenter-ml#281 · 1 commento · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Training UI: warning message for CSV input Aperta

needs prioritization UI/UX

AllenCell/allencell-segmenter-ml#282 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Catch-all notes only Aperta

AllenCell/allencell-segmenter-ml#284 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Thao share training dataset w Brian Aperta

AllenCell/allencell-segmenter-ml#285 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Main screen: update disabled/hidden tabs state if a model has not been selected Aperta

🚨 high priority🚨 UI/UX

AllenCell/allencell-segmenter-ml#286 · 0 commenti · 0 reazioni · 2 assegnatari · Indicizzata il 13/9/2026
Training requires filters override Aperta

🚨 high priority🚨

AllenCell/allencell-segmenter-ml#289 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Set num workers based on users # of available cores on cpu Aperta

medium priority

AllenCell/allencell-segmenter-ml#290 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Curation record list changed directly in model state Aperta

low priority refactor

AllenCell/allencell-segmenter-ml#295 · 1 commento · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
V2 _ Change popup modal for home directory to main screen Aperta

UI/UX

AllenCell/allencell-segmenter-ml#297 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Error reporting from training thread Aperta

🚨 high priority🚨 refactor

AllenCell/allencell-segmenter-ml#305 · 2 commenti · 0 reazioni · 2 assegnatari · Indicizzata il 13/9/2026
Training/Prediction Demo Aperta

AllenCell/allencell-segmenter-ml#309 · 2 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Suggest predefined patch sizes Aperta

AllenCell/allencell-segmenter-ml#312 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Only enable next button when current is also finished Aperta

AllenCell/allencell-segmenter-ml#314 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Refactor training: check user inputs right after train_btn pressed Aperta

low priority refactor

AllenCell/allencell-segmenter-ml#315 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Viewer DS optimization Aperta

AllenCell/allencell-segmenter-ml#316 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
View mapping in curation widget Aperta

AllenCell/allencell-segmenter-ml#319 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Make curation service testable Aperta

AllenCell/allencell-segmenter-ml#320 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Investigate radio button behavior and best practices Aperta

AllenCell/allencell-segmenter-ml#321 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
User defined Patch Sizes Aperta

🚨 high priority🚨

AllenCell/allencell-segmenter-ml#322 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Viewer image naming utils class Aperta

low priority

AllenCell/allencell-segmenter-ml#323 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Change training to use NapariThreadTaskExecutor instead of ChannelExtractionThread. Aperta

low priority refactor

AllenCell/allencell-segmenter-ml#331 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
[training] Remove spatial dims selection. Display to user and update UI when we know the spatial dims of their dataset Aperta

low priority

AllenCell/allencell-segmenter-ml#333 · 0 commenti · 0 reazioni · 2 assegnatari · Indicizzata il 13/9/2026
(Tentative) Deprecate image loader Aperta

refactor

AllenCell/allencell-segmenter-ml#335 · 2 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Finish input view tests Aperta

AllenCell/allencell-segmenter-ml#338 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Create a way for the user to change their home directory Aperta

low priority

AllenCell/allencell-segmenter-ml#341 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
General: what happen after a crash? Aperta

AllenCell/allencell-segmenter-ml#345 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Main screen: what happens if a user accidentally names their new model the same name as an existing one? Aperta

AllenCell/allencell-segmenter-ml#346 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Set up PyPI trusted publisher Aperta

🚨 high priority🚨

AllenCell/allencell-segmenter-ml#362 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
[curation] [multi-channel support] Only load selected channels during curation image loading Aperta

needs prioritization

AllenCell/allencell-segmenter-ml#365 · 1 commento · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
All segmentations need to be dispayed as label layer Aperta

needs prioritization

AllenCell/allencell-segmenter-ml#366 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
[1.1]create function to copy state dict for model weights Aperta

AllenCell/allencell-segmenter-ml#367 · 1 commento · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
[1.1] give user option to select an existing model to pull weights from Aperta

AllenCell/allencell-segmenter-ml#368 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
[1.2] test megaseg and models trained on other systems Aperta

AllenCell/allencell-segmenter-ml#369 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
[1.2] set up s3 bucket to host megaseg Aperta

AllenCell/allencell-segmenter-ml#370 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
prediction channel selection fix Aperta

🚨 high priority🚨

AllenCell/allencell-segmenter-ml#371 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Multi-channel segmentations Aperta

🚨 high priority🚨

AllenCell/allencell-segmenter-ml#374 · 2 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Display progress during first epoch Aperta

🚨 high priority🚨

AllenCell/allencell-segmenter-ml#379 · 1 commento · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Display loss metrics during training Aperta

medium priority

AllenCell/allencell-segmenter-ml#380 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Enforce no timeseries images for curation/training/prediction Aperta

🚨 high priority🚨

AllenCell/allencell-segmenter-ml#381 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Allow timeseries via config Aperta

needs prioritization

AllenCell/allencell-segmenter-ml#382 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
disable save csv button initially Aperta

AllenCell/allencell-segmenter-ml#383 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Curation config / channel selection persistence Aperta

medium priority

AllenCell/allencell-segmenter-ml#386 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
General refactor to align with curation Aperta

low priority refactor

AllenCell/allencell-segmenter-ml#389 · 0 commenti · 0 reazioni · 0 assegnatari · Indicizzata il 13/9/2026
Lint for type hints Aperta

low priority

AllenCell/allencell-segmenter-ml#390 · 2 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026
Prediction inputs need to be directories only Aperta

bug

AllenCell/allencell-segmenter-ml#394 · 0 commenti · 0 reazioni · 1 assegnatario · Indicizzata il 13/9/2026

AllenCell

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