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@mart-r mart-r commented Nov 5, 2025

This PR makes a number of major changes to the migration guide:

  • Fixes the links to working_with_cogstack for v2
    • I.e split between cogstack-es and medcat-scripts
    • As well as installation instructions
      • pip install for cogstack-es
      • python -m medcat download-scripts for the scripts
  • Fixes links to v2-specific trainer
    • Just the one in this repo
  • Add embed-linker to list of optional extras
  • Fixes FAQ regarding a lot of the above
  • Fixes installation instructions for cogstack-es
    • I.e quote the optional extras to avoid using these as options in regex (which would probably find nothing)
    • Somewhat unrelated, really. But I saw it while making these changes

@tomolopolis
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Task linked: CU-869b2fcrc Update migration guide

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@alhendrickson alhendrickson left a comment

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Approved, one typo

| Transformer NER | `deid` | Enables transformer-based NER, primarily used for de-identification models |
| Relation Extraction | `rel-cat` | Adds support for extracting relations between entities |
| Dictionary NER | `dict-ner` | Example dictionary NER module (experimental and rarely needed) |
| Embedding lonker | `embed-linker` | Linker that uses more sophisiticated context embeddings for linking |
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Typo lonker

@mart-r mart-r merged commit d7c7d0a into main Nov 6, 2025
39 of 41 checks passed
@mart-r mart-r deleted the docs/medcat/CU-869b2fcrc-update-migration-guide branch November 6, 2025 13:28
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4 participants