chore: update dependencies and repository metadata (#79)

- Update @biomejs/biome from 2.0.6 to 2.3.2
- Update typescript from 5.8.3 to 5.9.3
- Update node engine requirement from >=14.0.0 to >=20.19.0
- Update repository URLs from nanoporetech to jmespath-community
- Remove deprecated precommit script and contributors field
- Update coveralls-next to 4.2.2 and related dependencies

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Author: cawalch