Product backlog - Githubissues

angelolab / Nimbus-Inference

MIT License

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Product backlog #1

Open JLrumberger opened 5 months ago

JLrumberger commented 5 months ago

Description of feature

Nimbus inference repo

[x] Convert weights from tf to torch with ivy

Nimbus inference class

[x] Adapt from class from Nimbus repo
[x] Add tile & stitch inference
[x] Add different data source structures (i.e. ome-tiff directories)
[x] Add inference notebook comparable to this one
[ ] Add easy-to-use and hackable commandline interface

Viewer Widget

[x] Add viewer widget from here
[x] Make viewer widget work with less than three channels
[x] Build a second viewer widget with channels on the left, instance map on the right and all cells gray except the one we're interested in in white.

General project

[x] Make the data available (EMBL)
[x] Clean up plot notebooks