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HaplotypePartitioner::partition_haplotypes(): top-level chain 7964 is a loop; haplotype sampling cannot be used with this graph

Status: Open.

#4820 In vgteam/vg;

· GooLey1025 opened on Feb 3, 2026

vg index -x x.xg -g x.gcsa -k 16 x.vg；running too slow, how to set -X to accelerate?

Status: Open.

#4819 In vgteam/vg;

· xlliang761 opened on Feb 2, 2026

When I create gcsa index file,how to set the kmer-size and snarl-limit params?

Status: Open.

#4818 In vgteam/vg;

· xlliang761 opened on Feb 2, 2026

the difference between spliced pangenome graphs and pantranscriptomes

Status: Open.

#4814 In vgteam/vg;

· jwli-code opened on Jan 29, 2026

vg rna crash

Status: Open.

#4813 In vgteam/vg;

· ammorse opened on Jan 27, 2026

Reference path not found in graph

Status: Open.

#4811 In vgteam/vg;

· Karimelakoum opened on Jan 26, 2026

Which parameter should be used for ONT r9.4?

Status: Open.

#4807 In vgteam/vg;

· baoqinetwon opened on Jan 22, 2026

vg giraffe extremely slow on Illumina PE data unless rescue is disabled (-A none): clarification on trade-offs

Status: Open.

#4802 In vgteam/vg;

· Sumit1331 opened on Jan 18, 2026

Release v1.72.0

Status: Open.

#4790 In vgteam/vg;

· glennhickey opened on Jan 7, 2026

·  

v1.72.0

Aligning short reads to a pggb graph pangenome for SNP calling: vg map or vg giraffe

Status: Open.

#4781 In vgteam/vg;

· Hanjiangna opened on Dec 25, 2025

vg-arm v1.70.0 crash

Status: Open.

#4778 In vgteam/vg;

· StanelyFu1205 opened on Dec 17, 2025

vg call runs for days with no output

Status: Open.

#4777 In vgteam/vg;

· Victoria-pda opened on Dec 16, 2025