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

Status: Open.

#203 In griffithlab/regtools;

· Youpu-Chen opened on Jul 30, 2025

unable to install regtools

Status: Open.

#202 In griffithlab/regtools;

· uqwwon15 opened on Jun 25, 2025

ERROR in "regtools junctions annotate"

Status: Open.

#201 In griffithlab/regtools;

· dreammxy opened on May 14, 2025

Junction annotation question (unknown_strand)

Status: Open.

#200 In griffithlab/regtools;

· SaraAlidadiani opened on Feb 12, 2025

RNA stranded sequencing with wrong XS tags

Status: Open.

#199 In griffithlab/regtools;

· zhangpicb opened on Feb 6, 2025

Questions on using BAM file generated by 10X Cellranger

Status: Open.

#198 In griffithlab/regtools;

· Paria06 opened on Jan 21, 2025

Regtools junction extract: strandness detection malfunction

Status: Open.

#197 In griffithlab/regtools;

· santataRU opened on Oct 22, 2024

Issues with Regtools Statistical Analysis Workflow

Status: Open.

#190 In griffithlab/regtools;

· mguaita opened on Sep 16, 2024

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

Status: Open.

#189 In griffithlab/regtools;

· yfarjoun opened on Jul 3, 2024

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

Status: Open.

#188 In griffithlab/regtools;

· TimD1 opened on Jul 1, 2024

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

Status: Open.

#187 In griffithlab/regtools;

· yfarjoun opened on Jun 26, 2024

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

Status: Open.

#186 In griffithlab/regtools;

· yfarjoun opened on Jun 26, 2024