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Bedqc: improving bedqc filter #48

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xuebingjie1990 opened this issue Jan 27, 2023 · 2 comments
Open

Bedqc: improving bedqc filter #48

xuebingjie1990 opened this issue Jan 27, 2023 · 2 comments

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@xuebingjie1990
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xuebingjie1990 commented Jan 27, 2023

Currently, bedqc flags bed files that either

  1. are larger than 2G,
  2. have over 5 million regions, or
  3. have mean region width less than 10 bp.

Brainstorming for more sophisticate filtering

@khoroshevskyi khoroshevskyi transferred this issue from databio/bedbase Mar 14, 2024
@nsheff
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nsheff commented Jan 14, 2025

  • confidence or maturity of BED file
  • confidence of reference assignment compatibility (already stored in database)
  • similarity to other files with similar annotation (using embeddings?) "annotation reliability score"

@sanghoonio
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todo for reference genome assignment compatibility modal:

  • add links to new refgenie for the reference genomes
  • add heatmap for compatibility score / tier ranking, hover for details or explanation

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