Issues

• AttributeError: 'GeneInfo' object has no attribute 'reference_region'.

  bugduplicatesupposedly fixed
  ablab/IsoQuant#427 · Filter by author diazdc opened on Sep 17, 2026
  1

• error: unrecognized arguments: --n_cells auto

  documentation
  ablab/IsoQuant#424 · Filter by author defendant602 opened on Sep 2, 2026
  1

• Questions about improved TSS/poly(A) site detection and --fl_data in IsoQuant 4.0.0

  question
  ablab/IsoQuant#423 · Filter by author zhoudreames opened on Aug 31, 2026
  1

• analysis method, single sample or multi samples

  ablab/IsoQuant#422 · Filter by author suyanan opened on Aug 26, 2026
  5

• CRITICAL - IsoQuant failed with the following error - how to solve?

  ablab/IsoQuant#412 · Filter by author zhoujj2013 opened on Aug 1, 2026
  1

• Using IsoQuant to create a global transcriptome across multiple long-read single-nuclei RNA-seq PacBio Kinnex samples

  question
  ablab/IsoQuant#404 · Filter by author madisonreeves opened on Jul 16, 2026
  3

• Barcode collision in multi-sample single-cell runs

  enhancementsingle-cell
  ablab/IsoQuant#388 · Filter by author zczali4403 opened on Apr 16, 2026
  1

• Running with Parse Biosciences single-cell long-read data using pre-called barcodes

  single-cell
  ablab/IsoQuant#387 · Filter by author evanwangx opened on Apr 15, 2026
  7

• Question: Using IsoQuant after Iso-Seq preprocessing pipeline for bulk long-read RNA-seq

  question
  ablab/IsoQuant#380 · Filter by author ljh-9809 opened on Mar 27, 2026
  7

• Potential adverse effect of small chromosome coverage limit

  performancequestion
  ablab/IsoQuant#372 · Filter by author ljwharbers opened on Mar 10, 2026
  2

• Q: best practices?

  enhancementperformance
  ablab/IsoQuant#357 · Filter by author sklages opened on Dec 17, 2025
  5

• Output transcript usage matrix.

  enhancement
  ablab/IsoQuant#352 · Filter by author liuzhenyu-yyy opened on Dec 2, 2025
  1

  

• Visualize.py with --find_genes

  visualizer
  ablab/IsoQuant#351 · Filter by author GiliWolf opened on Nov 25, 2025
  1

• Reporting novel unspliced isoforms without polyA tails with --polya_requirement

  enhancement
  ablab/IsoQuant#342 · Filter by author hmutpw opened on Oct 10, 2025
  4

• Add an option to output the transcript/gene counts for all the available options for a single run

  enhancement
  ablab/IsoQuant#339 · Filter by author mpage21 opened on Sep 11, 2025
  1

• Cannot find gene ID in data for visualization

  visualizer
  ablab/IsoQuant#313 · Filter by author AlexFryd opened on May 29, 2025
  5

• IsoQuant visualize.py memory issue

  input dataperformancevisualizer
  ablab/IsoQuant#311 · Filter by author sme229 opened on May 21, 2025
  8

• antisense classification for ONT direct RNAseq data

  algorithmenhancementquestion
  ablab/IsoQuant#255 · Filter by author baishengjun opened on Nov 4, 2024
  4

• readthrough transcripts

  enhancement
  ablab/IsoQuant#101 · Filter by author rsalz opened on Jul 17, 2023
  1