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Clarify RRvGO consensus modes and improve report portability - #2

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miloes114 wants to merge 1 commit into
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fix/rrvgo-consensus-semantics
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Clarify RRvGO consensus modes and improve report portability#2
miloes114 wants to merge 1 commit into
mainfrom
fix/rrvgo-consensus-semantics

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Summary

  • split RRvGO outputs into strict true-consensus, conservative background-supported, and exploratory modes
  • update the HTML report and interpretation/docs to describe those modes honestly and explain legacy true_consensus evaluation filenames
  • auto-detect bundled Pandoc (for example from RStudio) so demo/report rendering works on fresh machines more reliably

Verification

  • devtools::test('.')
  • echogo_quickstart(run_demo = TRUE, make_report = TRUE)
    • produced rrvgo_conservative_bg_supported and rrvgo_exploratory_all_significant
    • rendered HTML report successfully once bundled Pandoc detection was added

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