Issues

• Python 3.14 compatibility Issue

  CSB5/lofreq#161 · Filter by author BRYZAL opened on Jul 10, 2026

• LoFreq for aviti data

  CSB5/lofreq#159 · Filter by author alexander-e-f-smith opened on Apr 22, 2026

• lofreq call ran into buffer overflow

  CSB5/lofreq#158 · Filter by author NCC-2310-Anna opened on Feb 3, 2026
  6

• Question about --no-default-filter being automatically applied in lofreq call-parallel

  CSB5/lofreq#153 · Filter by author YangJingqii opened on May 28, 2025

• Tag a release?

  CSB5/lofreq#152 · Filter by author schorlton-bugseq opened on Mar 1, 2025
  1

• Indel filtering using default filter at the last step failed

  CSB5/lofreq#151 · Filter by author masterrite opened on Feb 27, 2025
  2

• Unexpected Discrepancy in iSNV Detection Between Workflows With and Without Kraken2 Filtering

  CSB5/lofreq#150 · Filter by author YangJingqii opened on Jan 10, 2025

• Does threading not work nicely with Somatic caller?

  CSB5/lofreq#149 · Filter by author cappuchinese opened on Dec 2, 2024

• How does LoFreq automatically adapt to changes in coverage?

  CSB5/lofreq#148 · Filter by author LiuH2020 opened on Nov 19, 2024

• Are there any suggested set of hard filters on lofreq indel file

  CSB5/lofreq#145 · Filter by author tanu06 opened on Oct 25, 2024

• Lofreq viterbi

  CSB5/lofreq#144 · Filter by author rahil19 opened on Apr 26, 2024
  3

• Lofreq vcfplot - python version 3 support

  CSB5/lofreq#143 · Filter by author saradunaj opened on Feb 26, 2024

• What are the stringent outputs and why do I have different calling results?

  CSB5/lofreq#142 · Filter by author ginnyintifa opened on Feb 2, 2024

• IndexError: list index out of range

  CSB5/lofreq#140 · Filter by author min0609 opened on Oct 18, 2023
  7

• HTSLIB Variable

  CSB5/lofreq#138 · Filter by author mkadlof opened on Oct 16, 2023
  2

• subprocess.CalledProcessError: non-zero exit status 1

  CSB5/lofreq#137 · Filter by author balayev1 opened on Oct 13, 2023

• how to call multiple-sample variants

  CSB5/lofreq#136 · Filter by author ChenDepp opened on Sep 8, 2023
  4

• lofreq vcfplot issues

  CSB5/lofreq#135 · Filter by author Ge-Wu-pir opened on Aug 30, 2023
  2

• Permant error in the first step

  CSB5/lofreq#134 · Filter by author beginner984 opened on Aug 15, 2023
  1

• Problem of forget to indel alignment-quality to your bam-file

  CSB5/lofreq#133 · Filter by author Xiang-Leo opened on Jun 26, 2023
  4

• cpus count versus available cpus

  CSB5/lofreq#132 · Filter by author EricDeveaud opened on Sep 6, 2022

• Filter depend on number of cores?

  CSB5/lofreq#131 · Filter by author bernt-matthias opened on Jun 28, 2022

• lofreq call-parallel will hang forever on subprocess error

  CSB5/lofreq#128 · Filter by author tfmorris opened on Jun 8, 2022

• Warning: Didn't find any variants in input

  CSB5/lofreq#125 · Filter by author Ram-Nagar opened on Mar 12, 2022
  2

• lofreq p-value

  CSB5/lofreq#124 · Filter by author nelsonerikd opened on Jan 5, 2022