Issues

• Extract splice junctions from long-read RNA-seq aligned bam

  griffithlab/regtools#203 · Filter by author Youpu-Chen opened on Jul 30, 2025
  1

• unable to install regtools

  griffithlab/regtools#202 · Filter by author uqwwon15 opened on Jun 25, 2025

• ERROR in "regtools junctions annotate"

  griffithlab/regtools#201 · Filter by author dreammxy opened on May 14, 2025

• Junction annotation question (unknown_strand)

  griffithlab/regtools#200 · Filter by author SaraAlidadiani opened on Feb 12, 2025

• RNA stranded sequencing with wrong XS tags

  griffithlab/regtools#199 · Filter by author zhangpicb opened on Feb 6, 2025

• Questions on using BAM file generated by 10X Cellranger

  griffithlab/regtools#198 · Filter by author Paria06 opened on Jan 21, 2025
  1

• Regtools junction extract: strandness detection malfunction

  griffithlab/regtools#197 · Filter by author santataRU opened on Oct 22, 2024

• Issues with Regtools Statistical Analysis Workflow

  griffithlab/regtools#190 · Filter by author mguaita opened on Sep 16, 2024

• feat: Allow read filtering based on mapping quality to junctions extract

  griffithlab/regtools#189 · Filter by author yfarjoun opened on Jul 3, 2024

• Bug: min_intron_length_ accidentally initialized from anchor (not intron) length parameter

  griffithlab/regtools#188 · Filter by author TimD1 opened on Jul 1, 2024

• bug report: junction extract tool should not count overlapping reads as double support for a junction

  griffithlab/regtools#187 · Filter by author yfarjoun opened on Jun 26, 2024

• Feature request: add per-read anchor requirement to junction extract tool

  griffithlab/regtools#186 · Filter by author yfarjoun opened on Jun 26, 2024
  1

• Unrecognized strandness argument!

  griffithlab/regtools#185 · Filter by author hsymoon opened on May 11, 2024
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• KeyError: 'score' problem

  griffithlab/regtools#184 · Filter by author CuteGold0407 opened on Apr 10, 2024

• Feature request

  griffithlab/regtools#183 · Filter by author Mohamed-HAMICI opened on Mar 19, 2024
  1

• Question about single cell regtools junctions extract.

  griffithlab/regtools#182 · Filter by author xiaohe0404 opened on Mar 13, 2024

• Splice junctions are delayed by one position at the 5' side

  griffithlab/regtools#181 · Filter by author bkffadia opened on Dec 7, 2023

• Building error

  griffithlab/regtools#180 · Filter by author aravindpad opened on Dec 6, 2023
  2

• Test data for regtools cannot be found!

  griffithlab/regtools#179 · Filter by author Eteleeb opened on Oct 24, 2023

• Questions about compare_junctions_hist_v2.R

  griffithlab/regtools#178 · Filter by author R-Najjar opened on Aug 3, 2023
  3

• installation problem

  griffithlab/regtools#176 · Filter by author smurph50 opened on May 15, 2023
  4

• Multiple input BAM

  griffithlab/regtools#172 · Filter by author alexcorm opened on Jan 25, 2023

• invalid strand values after running junctions extract

  griffithlab/regtools#166 · Filter by author Vishvak2000 opened on Aug 16, 2022
  1

• Junction extract: different junction start/end sites detected using short and long reads

  griffithlab/regtools#165 · Filter by author ErminZ opened on Jul 20, 2022
  1

• Comments/problems noticed while getting Example workflow to run

  griffithlab/regtools#153 · Filter by author toddajohnson opened on Oct 13, 2021
  1