Issues

• Memory plans of Zarr read loops miss the previous chunk that a pool thread still holds

  NygenAnalytics/CyteArc#107 · Filter by author parashardhapola opened on Nov 1, 2026

• The ADT and ATAC recipes do not check Harmony batch labels before the run

  NygenAnalytics/CyteArc#106 · Filter by author parashardhapola opened on Nov 1, 2026

• A composed embedding's legend leaves out the cells without a value

  NygenAnalytics/CyteArc#105 · Filter by author parashardhapola opened on Nov 1, 2026

• write_cell_data_artifact copies every text array twice before saving it

  NygenAnalytics/CyteArc#104 · Filter by author parashardhapola opened on Nov 1, 2026

• The first cell selection check in a process fingerprints every cell ID outside the memory budget

  NygenAnalytics/CyteArc#103 · Filter by author parashardhapola opened on Nov 1, 2026

• Short metadata columns decode 100,000 rows on every read

  NygenAnalytics/CyteArc#102 · Filter by author parashardhapola opened on Nov 1, 2026

• The guide calls legend lists calls that no cell has and covers the longest bars

  NygenAnalytics/CyteArc#101 · Filter by author parashardhapola opened on Nov 1, 2026

• load_labels refuses combination labels at the budget that labelled them

  NygenAnalytics/CyteArc#100 · Filter by author parashardhapola opened on Nov 1, 2026

• compose_results leaves inset axes out of the composite's axes

  NygenAnalytics/CyteArc#99 · Filter by author parashardhapola opened on Nov 1, 2026

• HVG selection drops its warning about too few candidates when it reuses a saved selection

  NygenAnalytics/CyteArc#98 · Filter by author parashardhapola opened on Nov 1, 2026

• Motif annotation reader accepts rows with missing or extra fields

  bug
  NygenAnalytics/CyteArc#82 · Filter by author parashardhapola opened on Oct 30, 2026

• Live dataset tests fail instead of skipping when the network is unreachable

  bug
  NygenAnalytics/CyteArc#81 · Filter by author parashardhapola opened on Oct 30, 2026

• plots.embedding refuses a color artifact on an equal but different cell selection

  bug
  NygenAnalytics/CyteArc#70 · Filter by author parashardhapola opened on Oct 29, 2026

• Build a multi-assay store from in-memory count matrices

  enhancement
  NygenAnalytics/CyteArc#69 · Filter by author parashardhapola opened on Oct 29, 2026

• The default count layout needs 13 to 15 GB to import a 0.56 GB matrix

  bug
  NygenAnalytics/CyteArc#68 · Filter by author parashardhapola opened on Oct 29, 2026

• Hashtag demultiplexing calls almost every cell a doublet when a hashtag's background is all zeros

  bug
  NygenAnalytics/CyteArc#67 · Filter by author parashardhapola opened on Oct 29, 2026

• Importing a dense h5ad plans memory as if every value were nonzero

  bug
  NygenAnalytics/CyteArc#66 · Filter by author parashardhapola opened on Oct 29, 2026