Issues

• virusbreakend-build: The download link of taxid10239.nbr is a webpage, not a direct file link

  PapenfussLab/gridss#705 · Filter by author 54sym opened on Apr 29, 2026
  1

• gridss_somatic_filter failed

  PapenfussLab/gridss#704 · Filter by author lmanchon opened on Apr 23, 2026

• bwa-mem2

  PapenfussLab/gridss#702 · Filter by author lmanchon opened on Nov 8, 2025

• Virusbreakend in singularity cannot find Kraken2

  PapenfussLab/gridss#701 · Filter by author vella12-osu opened on Oct 21, 2025

• PositionalAssembler Error: Invalid file pointer

  PapenfussLab/gridss#694 · Filter by author fmarchiano opened on Apr 1, 2025

• PoN created with more samples ended up smaller PoN

  PapenfussLab/gridss#692 · Filter by author sainadfensi opened on Feb 12, 2025

• gridssID

  PapenfussLab/gridss#690 · Filter by author avrajit opened on Jan 16, 2025

• gridss somatic SV error

  PapenfussLab/gridss#689 · Filter by author dbhayal9 opened on Jan 8, 2025

• BasicFastqWriterTest.test_flush_not_spammed fails due to additional flush() calls

  PapenfussLab/gridss#688 · Filter by author jfcr-genome opened on Jan 1, 2025
  2

• Stochastic behaviour of GRIDSS

  PapenfussLab/gridss#687 · Filter by author gseryogin opened on Dec 13, 2024
  6

• virusbreakend-build error on Docker image

  PapenfussLab/gridss#686 · Filter by author dlopez-bioinfo opened on Dec 11, 2024

• ALT coordinate

  PapenfussLab/gridss#685 · Filter by author uretaj opened on Nov 19, 2024
  1

• Conda install doesnt work

  PapenfussLab/gridss#684 · Filter by author amcpherson opened on Oct 30, 2024

• Are the docker image GRIDSS2 or GRIDSS version 1?

  PapenfussLab/gridss#682 · Filter by author lwtan90 opened on Oct 3, 2024

• What is the exact command to run gridss_somatic_filter?

  PapenfussLab/gridss#680 · Filter by author lwtan90 opened on Sep 18, 2024

• Structural Variation Identification Using GRIDSS

  PapenfussLab/gridss#679 · Filter by author anitha-ravichandran opened on Sep 18, 2024

• Illegal seek

  PapenfussLab/gridss#677 · Filter by author avrajit opened on Sep 9, 2024
  2

• Running into errors with conda version while docker/singularity work fine

  PapenfussLab/gridss#676 · Filter by author famosab opened on Sep 4, 2024
  4

• ERROR::INVALID_ALIGNMENT_START:Record 341, Read name 1-15215340, Mate Alignment start should be 0 because reference name = *

  PapenfussLab/gridss#675 · Filter by author kuangzhuoran opened on Aug 30, 2024

• SoftClipsToSplitReads error: mem: invalid option -- 'K'

  PapenfussLab/gridss#673 · Filter by author kostasgalexiou opened on Aug 23, 2024

• gridss results MERGE problems with other SV recognition software

  PapenfussLab/gridss#672 · Filter by author HuangYihang1222 opened on Aug 23, 2024
  5

• NullPointerException during CollectGridssMetricsAndExtractSVReads

  PapenfussLab/gridss#671 · Filter by author vrohnie opened on Aug 19, 2024

• Docker img doesnt work

  PapenfussLab/gridss#669 · Filter by author saphir746 opened on Aug 16, 2024
  1

• Running Joint Calling

  PapenfussLab/gridss#667 · Filter by author HenryMarshall97 opened on Jul 22, 2024

• Clarify --assembly in documentation

  PapenfussLab/gridss#664 · Filter by author famosab opened on Jul 10, 2024