Issues

• Please initialise array in testfile explicitly to empty string array

  andersen-lab/ivar#192 · Filter by author tillea opened on Aug 13, 2026

• Does not build with gcc-16 (workaround with -std=c++17)

  andersen-lab/ivar#191 · Filter by author tillea opened on Aug 13, 2026
  1

• Support frequency-based variant reporting threshold

  andersen-lab/ivar#190 · Filter by author DOH-JDJ0303 opened on Feb 26, 2026

• Are soft-clipped primer bases included in iVar consensus?

  andersen-lab/ivar#189 · Filter by author MonaMe1112 opened on Jan 14, 2026
  2

• header format of .tsv did not match!

  andersen-lab/ivar#178 · Filter by author zdk427 opened on Apr 25, 2024
  3

• Does ivar trim only from the ends of aligned BAM files?

  andersen-lab/ivar#177 · Filter by author yl315504 opened on Apr 10, 2024
  2

• Parsing GFF_FEATURE

  andersen-lab/ivar#174 · Filter by author jfouret opened on Mar 13, 2024

• Variants returns multiple AA with 1.00 frequency

  andersen-lab/ivar#173 · Filter by author shoulton-invivyd opened on Jan 31, 2024
  2

• REF_AA not consistent with actual AA at the position from reference protein fasta file

  andersen-lab/ivar#172 · Filter by author Shawn-X-Zhang opened on Jan 16, 2024
  2

• Header format error in ivar filtervariants

  andersen-lab/ivar#171 · Filter by author fshepherd13 opened on Nov 29, 2023
  1

  

• Further speedup in iVar Trim primer finding

  enhancement
  andersen-lab/ivar#162 · Filter by author niemasd opened on Apr 5, 2023 · v1.4.3
  3

  

• Clarification of new ivar consensus -c (minimum insertion frequency) parameter

  andersen-lab/ivar#149 · Filter by author wm75 opened on Feb 13, 2023
  

• Concurrency for ivar trim?

  enhancement
  andersen-lab/ivar#139 · Filter by author philiptzou opened on Oct 9, 2022
  10

  

• ivar consensus: call reference at positions with low coverage

  enhancement
  andersen-lab/ivar#131 · Filter by author alephreish opened on Jun 23, 2022
  1

• Ivar variants issue with indels

  andersen-lab/ivar#126 · Filter by author Alema91 opened on Apr 4, 2022
  1

• Allow different thresholds for insertions and SNVs

  enhancement
  andersen-lab/ivar#114 · Filter by author bwlang opened on Jan 7, 2022
  2

  

• How does ivar handle samtools mpileup output for overlapping Paired-End Reads?

  andersen-lab/ivar#113 · Filter by author ggrimes opened on Dec 13, 2021
  1

• Inconsistency between ivar consensus and ivar variants

  andersen-lab/ivar#103 · Filter by author IsabelFE opened on Jun 14, 2021
  5

• iVar variants inconsistency

  andersen-lab/ivar#100 · Filter by author gianfilippo opened on May 18, 2021
  2

• GFF file not recognized

  andersen-lab/ivar#98 · Filter by author domenico-simone opened on May 11, 2021
  6

  

• ivar consensus: option -q is not filtering low quality bases

  andersen-lab/ivar#97 · Filter by author pmenzel opened on Apr 23, 2021
  1

  

• ivar variants: reducing q-score threshold results in high P-value for deletion

  andersen-lab/ivar#96 · Filter by author pmenzel opened on Apr 22, 2021
  1

• iVar doesnt trim right end of single end reads

  andersen-lab/ivar#94 · Filter by author JenkoB opened on Apr 1, 2021
  1

• ivar calls three nucleotide changes instead of just one complete codon change

  enhancement
  andersen-lab/ivar#92 · Filter by author saramonzon opened on Mar 23, 2021
  1

  

• iVar miss-priming issues?

  andersen-lab/ivar#91 · Filter by author dcm9123 opened on Mar 22, 2021
  1