Issues

• GetOrganelle v1.8.0.1 fails with AssertionError during disentangling (embplant_pt)

  Kinggerm/GetOrganelle#390 · Filter by author sidrafatima0824-star opened on Apr 14, 2026

• 'NoneType' object has no attribute 'remove' and slimming failed!

  Kinggerm/GetOrganelle#388 · Filter by author zeyoguzhan opened on Feb 16, 2026

• Disentangling AssertionError

  Kinggerm/GetOrganelle#384 · Filter by author lucky-riverstar opened on Dec 2, 2025

• Negative base coverage

  Kinggerm/GetOrganelle#383 · Filter by author ulilautenschlager opened on Nov 7, 2025

• error

  Kinggerm/GetOrganelle#381 · Filter by author ola051102 opened on Jul 23, 2025
  1

• Optical k-mer did help in one case but worse result in other

  Kinggerm/GetOrganelle#379 · Filter by author desmodus1984 opened on Jun 20, 2025

• Clarification on --disentangle-df: How is the depth factor used in filtering?

  Kinggerm/GetOrganelle#378 · Filter by author microbpro-cat opened on Jun 20, 2025

• Unexpectedly shorter mitogenome when using Trematoda-specific seed/label in GetOrganelle

  Kinggerm/GetOrganelle#377 · Filter by author microbpro-cat opened on Jun 20, 2025

• Plant Mitochondria assembly get fastag but broken assembly without combined circular contig

  Kinggerm/GetOrganelle#374 · Filter by author rashedbtcu opened on May 17, 2025

• Circular assembly fails with custom database, even though it works with the default animal_mt database

  Kinggerm/GetOrganelle#371 · Filter by author microbpro-cat opened on Apr 7, 2025

• Problems in Assembling Embplant_pt within Plastome Genome by GetOrganelle v1.8.0.1: Data Scarcity, Assembly Disentangling Failures and AssertionError

  Kinggerm/GetOrganelle#370 · Filter by author rry-1 opened on Feb 25, 2025
  4

• Disentangling unsuccessful and only getting one (44kbp) scaffold

  Kinggerm/GetOrganelle#368 · Filter by author mvanda3 opened on Feb 6, 2025

• Termination of mitochondrial assembly

  Kinggerm/GetOrganelle#360 · Filter by author xhx-1 opened on Nov 23, 2024
  1

• Getting stuck at Slimming assembly graph during get_organelle_from_assembly.py

  Kinggerm/GetOrganelle#351 · Filter by author bwesen opened on Oct 30, 2024
  2

• MemoryError

  Kinggerm/GetOrganelle#347 · Filter by author wkkdmx opened on Sep 12, 2024

• Error with running SPAdes: == Error == exception caught: <class 'AttributeError'>

  Kinggerm/GetOrganelle#345 · Filter by author oddguyeee opened on Aug 24, 2024
  10

• (ERR): bowtie2-align died with signal 9 (KILL)

  Kinggerm/GetOrganelle#343 · Filter by author zonglanlan opened on Aug 9, 2024

• Extended SPAdes was created for low quality sequence read instead complete assembly

  Kinggerm/GetOrganelle#341 · Filter by author timurrxxcd opened on Jul 31, 2024
  2

• something went wrong when using -F anonym without --target-genome-size

  Kinggerm/GetOrganelle#337 · Filter by author sixpoints opened on Jun 7, 2024

• get_organelle_from_reads.py can not find the embplant_nr db in SGE

  Kinggerm/GetOrganelle#336 · Filter by author xiefumin1 opened on Jun 7, 2024

• math domain error

  Kinggerm/GetOrganelle#335 · Filter by author smoothyly opened on Jun 5, 2024

• Increase the insert size length to improve assembly completeness

  Kinggerm/GetOrganelle#329 · Filter by author zhengyanstu opened on May 2, 2024
  1

• Regarding the Use of Incomplete Plant Mitochondrial Genome Assembly Outputs for Subsequent Analysis

  Kinggerm/GetOrganelle#317 · Filter by author twdawd opened on Mar 14, 2024
  2

• Estimated XX base-coverage = 0.00

  bug
  Kinggerm/GetOrganelle#311 · Filter by author MarjaHei opened on Feb 6, 2024
  5

• Slimming failed and no valid assembly graph found

  Kinggerm/GetOrganelle#301 · Filter by author poojancf opened on Dec 6, 2023
  6