v0.7.0

What's Changed

With this release we add new tools for advanced strategies that describe how to speed up the calculation of embeddings, potentially improve their umaps, and refine references/targets!

Improve reference/targets with umaps (Strategy 1)

Add new umap and filter options by @thorstenwagner in #64

Faster embeddings with median filtering (Strategy 2)

Add fast median mask estimation by @thorstenwagner in #66

It can dramatically speed up the embedding step compared to using no masking, and it also outperforms the previous method based on intensity heuristics:

Other

• increase timeout of the dataloader to 180 seconds. by @thorstenwagner in #57
• --save_after_improvement saves models after each epoch by @thorstenwagner in #60
• Check & correct for duplicate embedded subvolumes by @thorstenwagner in #61
• Fix padding when creating heatmaps during locate with --write_heatmaps by @thorstenwagner in #65

Documentation

• Add strategies pages to the documentation and link them by @thorstenwagner in #67 #68 #69 #70 #71

Full Changelog: v0.6.1...0.7.0