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Potential improvements to the pVACview NeoFox module #1098

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4 of 13 tasks
susannasiebert opened this issue Apr 30, 2024 · 0 comments
Open
4 of 13 tasks

Potential improvements to the pVACview NeoFox module #1098

susannasiebert opened this issue Apr 30, 2024 · 0 comments
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pVACview

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@susannasiebert
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susannasiebert commented Apr 30, 2024 •
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  • Allow gene of interest tsv upload and highlight these genes like we do in the pVACseq module
  • Add heatmap background to the various IC50 columns
  • Add barplot background to the VAF & expression columns
  • Add red highlighting to the mutation_not_found_in_proteome column
  • Add an evaluation selector column and counters
  • Allow for export of the main table with the selected evaluation
  • Come up with some sort of algorithm that would allow us to tier the candidates.
    • Use sensible defaults; show these in a section
    • Allow users to re-tier with different thresholds; show current thresholds in a section
    • Allow users to reset the tiering
    • Add red outlines to fields that result in lower tiers
  • Add algorithm concordance violin plots for a single variant
  • I think it could be interesting to display the register that each algorithm determined as the “best” epitope in context of the full peptide
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