Issues

• pl.feature_volcano labels features without a family as 'nan'

  scverse/mantispy#267 · Filter by author timtreis opened on Nov 4, 2026

• mt.io.stamp() complains about columns but doesn't explain what the entries are

  documentationsbi2-hackathon
  scverse/mantispy#258 · Filter by author timtreis opened on Nov 1, 2026

• SBI2 hackathon: mantispy alpha-test quests

  sbi2-hackathon
  scverse/mantispy#244 · Filter by author timtreis opened on Oct 31, 2026

• Quest: do protein complexes phenocopy across four screens?

  quest: advancedsbi2-hackathon
  scverse/mantispy#243 · Filter by author timtreis opened on Oct 31, 2026

• Quest: reproduce Arevalo's batch-correction ranking on JUMP-Target-2

  quest: advancedsbi2-hackathon
  scverse/mantispy#242 · Filter by author timtreis opened on Oct 31, 2026

• Quest: SCALLOPS ARV-471, recover the ER rescuers with an honest replicate

  quest: advancedsbi2-hackathon
  scverse/mantispy#241 · Filter by author timtreis opened on Oct 31, 2026

• Quest: bring your own data and report every friction point

  quest: intermediatesbi2-hackathon
  scverse/mantispy#240 · Filter by author timtreis opened on Oct 31, 2026

• Quest: Element Cytos, is the TNFα effect real with 6 against 6 wells?

  quest: intermediatesbi2-hackathon
  scverse/mantispy#239 · Filter by author timtreis opened on Oct 31, 2026

• Quest: Altair OPS, how many knockouts survive the cutting control?

  quest: intermediatesbi2-hackathon
  scverse/mantispy#238 · Filter by author timtreis opened on Oct 31, 2026

• Quest: JUMP-Lite, does the embedding ranking hold on Target-2?

  quest: intermediatesbi2-hackathon
  scverse/mantispy#237 · Filter by author timtreis opened on Oct 31, 2026

• Quest: PKI across four cell lines, which kinase-inhibitor phenotypes are shared?

  quest: intermediatesbi2-hackathon
  scverse/mantispy#236 · Filter by author timtreis opened on Oct 31, 2026
  1

• Quest: BBBC021, close the gap between 0.78 and 83% MoA accuracy

  quest: beginnersbi2-hackathon
  scverse/mantispy#235 · Filter by author timtreis opened on Oct 31, 2026

• Quest: tutorial cold reads, log every stumble

  quest: beginnersbi2-hackathon
  scverse/mantispy#234 · Filter by author timtreis opened on Oct 31, 2026

• Backlog: agreed method work packages not yet filed as issues

  scverse/mantispy#179 · Filter by author timtreis opened on Oct 1, 2026

• Modify img that gets loaded in text preview so that it doesn't crop the logo

  Enhancement

  scverse/mantispy#177 · Filter by author timtreis opened on Sep 30, 2026

• Tutorial: pooled_rare (pre-aggregated barcode-resolution input)

  scverse/mantispy#165 · Filter by author timtreis opened on Sep 28, 2026

• Tutorial: chroma (non-standard dye channels)

  scverse/mantispy#164 · Filter by author timtreis opened on Sep 28, 2026

• Reprocess the Funk 2022 optical pooled screen into shareable cell-level data objects (for the publication)

  scverse/mantispy#141 · Filter by author timtreis opened on Sep 26, 2026

• OPS documentation section: tutorials for optical pooled screening analysis (epic)

  scverse/mantispy#140 · Filter by author timtreis opened on Sep 26, 2026
  1

• Validate the cell-resolution hit-calling module on real OPS data (specificity, sensitivity, UX)

  scverse/mantispy#139 · Filter by author timtreis opened on Sep 26, 2026

• Add an optical pooled screening (OPS) cell-resolution dataset to mt.ds (Funk 2022 essential genes)

  scverse/mantispy#138 · Filter by author timtreis opened on Sep 26, 2026
  3

• subpopulation_hits has the same cell-within-well pseudoreplication as hit_calling (#68 follow-up)

  scverse/mantispy#137 · Filter by author timtreis opened on Sep 26, 2026

• Curated feature->process priors for enrich do not cleanly pay off (prototype); enrich channel/feature_group scoring is the interpretable value

  scverse/mantispy#134 · Filter by author timtreis opened on Sep 26, 2026

• feature_select: helper to choose decorr_threshold by a user-supplied metric

  scverse/mantispy#133 · Filter by author timtreis opened on Sep 25, 2026

• No way to name a learned embedding's axes from a named feature block on the same wells

  scverse/mantispy#110 · Filter by author timtreis opened on Sep 21, 2026