v1.7.0: microglia-adjusted ventral-horn test (Amendment 13)

Adds Amendment 13: the territory × disease test of the ventral-horn response, adjusted for microglial content.

New in v1.7.0

• Amendment 13 (docs/analysis_plans/..._AMENDMENT_13.md), committed before W70 was run. It asks whether the ventral-horn rise of the frozen ALS-up module is explained by microglial abundance.
• scripts/run_w70_microglia_adjusted_territory.R (W70): refits the lumbar (GSE330224, W67 inputs) and cervical (GSE288365, W68 inputs) territory models with a centred unit-level microglial marker score.
  • Primary score: all microglial markers. Sensitivity scores: homeostatic-only and activated-only markers.
  • Reports the attenuation against the unadjusted interaction, the prespecified Stouffer combination and the reading rule.
• Result (docs/analyses/W70_microglia_adjusted_territory.md):
  • Frozen ALS-up module: attenuation 53% (lumbar) and 75% (cervical); combined one-sided P = 0.020; reading "partly shared with microglial abundance".
  • Most of the shared part is carried by the activated-myeloid markers.
  • Consensus up arm: not explained by microglial content.
• scripts/figures_v2/figS9_microglia_adjusted.R: new Supplementary Fig. S9, added to compose_figures_v3.R.
  • Fig. 1 timeline and evidence map updated.
• Supplementary Tables: S1 (Amendment 13), S2 (W70 tests), S4l and S4m added.
• README and CITATION (v1.7.0) updated.

No data are included.