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Support optimization using N1-methylpseudouridine with ViennaRNA - #11

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joh16 wants to merge 2 commits into
ChangLabSNU:mainfrom
joh16:feature/modified-bases
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Support optimization using N1-methylpseudouridine with ViennaRNA#11
joh16 wants to merge 2 commits into
ChangLabSNU:mainfrom
joh16:feature/modified-bases

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@joh16

@joh16 joh16 commented May 20, 2024

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Summary

  • This feature would be available after RNAFold(ViennaRNA) officially supports N1-methylpseudouridine
  • Substitutes every uridine to N1-methylpseudouridine if command line flag --m1psi is provided
    • Output sequence will contain 1 instead of U

Checklist

  • --folding-engine vienna with --m1psi working
  • --folding-engine vienna without --m1psi working
  • --folding-engine linearfold with --m1psi throws error (not supported)
  • --folding-engine linearfold without --m1psi working

Sample Result

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