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vg giraffe runs unusually slowly on Illumina paired-end reads on one user's system

Status: Open.

#4687 In vgteam/vg;

· upsm-123 opened on Aug 27, 2025

Release vg v1.69.0

Status: Open.

#4686 In vgteam/vg;

· adamnovak opened on Aug 25, 2025

· 

v1.69.0

Distanceless distance indexing is very slow

Status: Open.

#4681 In vgteam/vg;

· xchang1 opened on Aug 19, 2025

vg inject + vg stats doesn't give the same number of alignments as samtools flagstats on BAM

Status: Open.

#4676 In vgteam/vg;

· MarionPerrier opened on Aug 8, 2025

Reduced recall due to low MAPQ after surjecting long-read graph alignments to GRCh38

Status: Open.

#4675 In vgteam/vg;

· matthewglasenapp opened on Aug 7, 2025

vg call Hanging on a Few Samples

Status: Open.

#4671 In vgteam/vg;

· GooLey1025 opened on Aug 5, 2025

Crash in vg pack -e -d due to invalid UTF-8 in vg.Edit.sequence (real GAM, Nanopore data)

Status: Open.

#4668 In vgteam/vg;

· florenmartino opened on Jul 28, 2025

vg giraffe crash

Status: Open.

#4659 In vgteam/vg;

· jkbonfield opened on Jul 16, 2025

<code>vg mpmap -l very-short</code> crashed (Signal 11)

Status: Open.

#4646 In vgteam/vg;

· MarionPerrier opened on Jul 1, 2025

vg giraffe hangs or stalls when reading large gzipped FASTQ files

Status: Open.

#4645 In vgteam/vg;

· linsson opened on Jul 1, 2025

Pacbio full-length transcripts with low mapping rate

Status: Open.

#4632 In vgteam/vg;

· zhangyixing3 opened on Jun 12, 2025

ERROR: Signal 6 occurred. VG has crashed - vg safari crashes with short paired-end reads

Status: Open.

#4631 In vgteam/vg;

· SimonaSecomandi opened on Jun 11, 2025