v2026.10.22: Data and code for Mapping bioimage-analysis software adoption in microscopy

mapping-bioimage-software v2026.10.22

Public release accompanying the preprint and manuscript:
Mapping bioimage-analysis software adoption in microscopy
Authors: Tayla Shakespeare, Bruno M. Saraiva, Inês Cunha, Caron Jacobs, Guillaume Jacquemet, Ricardo Henriques.

• Zenodo archive: concept DOI 10.5281/zenodo.23395934 (resolves to the latest version)
• Licence: Code under MIT (LICENSE); data under CC BY 4.0 (LICENSE-DATA).
• Archive integrity: Built from clean commit d9e8b57 with release/make_release.py. Contains 797 files (exact tracked tree plus five provenance files: GIT_COMMIT.txt, ENVIRONMENT.txt, PROVENANCE.json, MANIFEST.tsv, MANIFEST.sha256).
• Data copyright hygiene: Zero source-article titles, abstracts, snippets, or full text are included. All public records use identifiers (epmc_id, pmcid, DOIs) or derived counts/labels. Full text can be reconstructed locally with release/refetch_identifiers.py.
• Reproducibility: Figure walkthroughs (Figures 1–6, Supplementary Figures 1–3) and Supplementary Information tables (S1–S15) are reproduced in documented Jupyter notebooks under notebooks/.

Changes since v2026.10.21

• Supplementary Table S6 gains a core-package alias row (403 of 412 agreed matches mention the software), produced by census/tables/make_si_tables.py from data/processed/validation_pooled_2025.csv.

Archive Checksums

• mapping-bioimage-software-2026.10.22.zip (9,164,936 bytes)
• MD5: 2ccc304e21520d71b0949573e7bebccd
• SHA-256: 506b3d705e605edca107bfe0eb87d7a58c2684e1588a39629579986a9ce4989a