Issues

• Only-tumor annotation?

  hall-lab/svtools#335 · Filter by author jgarces02 opened on Aug 28, 2025

• svtools classify: KeyError: 'CN'

  hall-lab/svtools#334 · Filter by author hxhkgua opened on Jan 18, 2025

• sv.vcf.gz

  hall-lab/svtools#333 · Filter by author ghost opened on Jan 16, 2025

• GT:CN ./.:309.986

  hall-lab/svtools#332 · Filter by author pingxinxing opened on Jul 24, 2024
  1

• [E::vcf_parse_format] Incorrect number of FORMAT fields at chrxxxx

  hall-lab/svtools#331 · Filter by author pingxinxing opened on Jun 16, 2024

• vcftobedpe does not give strandedness for MANTA Outputs

  hall-lab/svtools#330 · Filter by author think-o opened on Jun 12, 2024
  1

• svtools copynumber:Can't find directory 'bin_1000'.

  hall-lab/svtools#329 · Filter by author pingxinxing opened on Jun 3, 2024

• svtools lsort KeyError: 'CIPOS'

  hall-lab/svtools#328 · Filter by author hcsun1 opened on Apr 12, 2024

• Assistance Needed with svtools lsort - No Output Generated

  hall-lab/svtools#327 · Filter by author karen916 opened on Dec 15, 2023

• svtools afreq KeyError: 'SQ' in

  hall-lab/svtools#326 · Filter by author shameem356 opened on Jun 19, 2023

• ValueError: max() arg is an empty sequence

  hall-lab/svtools#325 · Filter by author Hubuyan opened on Apr 10, 2023

• bedpetovcf does not work with vcftobedpe output as input

  hall-lab/svtools#324 · Filter by author anoronh4 opened on Jun 3, 2022
  1

• svtools copynumber error *** Break *** segmentation violation

  hall-lab/svtools#323 · Filter by author cusanchang opened on May 25, 2022

• Not able to convert vcf to bedpe (Manta output)

  hall-lab/svtools#322 · Filter by author Giuseppe1995 opened on May 17, 2022

• possible bug in TRA conversion

  hall-lab/svtools#318 · Filter by author anoronh4 opened on Jan 26, 2022

• Are lmerge same as l_merge.py scripts included in LUMPY?

  hall-lab/svtools#317 · Filter by author sulinq opened on Nov 15, 2021

• lsort Index error

  hall-lab/svtools#316 · Filter by author stubbsrl opened on Nov 2, 2021
  3

• lmerge divide zero error

  hall-lab/svtools#315 · Filter by author genostack opened on Oct 15, 2021
  2

• Installation still fails due to conflicting pandas version

  hall-lab/svtools#314 · Filter by author Carina201000 opened on Oct 14, 2021

• what is the difference between lmerge sum and prod algorithm ?

  hall-lab/svtools#313 · Filter by author genostack opened on Oct 14, 2021

• pip install fails

  hall-lab/svtools#312 · Filter by author anoronh4 opened on Aug 10, 2021
  2

• svtools vcfpaste error

  hall-lab/svtools#310 · Filter by author KrithikaSubramanian opened on Apr 19, 2021
  2

• No module named 'l_bp'

  hall-lab/svtools#309 · Filter by author Avramis opened on Apr 16, 2021
  1

• Python 3.6

  hall-lab/svtools#308 · Filter by author mike-molnar opened on Dec 21, 2020

• vcftobedpe complains about no END field in LUMPY BNDs.

  hall-lab/svtools#307 · Filter by author jasonbhn opened on Oct 26, 2020
  1