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hisat2-build segmentation fault

Status: Open.

#468 In DaehwanKimLab/hisat2;

· estolle opened on Jun 9, 2026

Segmentation fault

Status: Open.

#467 In DaehwanKimLab/hisat2;

· Helyem opened on Apr 6, 2026

HISAT-3N: silently ignores read pairs when --repeat is set

Status: Open.

#465 In DaehwanKimLab/hisat2;

· ankebusch opened on Dec 10, 2025

Default format parsing in HISAT2 causes incorrect read length calculation.

Status: Open.

#464 In DaehwanKimLab/hisat2;

· huangl-CAU opened on Nov 13, 2025

Hisat3n-table: unexpected strand info and missing sites?

Status: Open.

#461 In DaehwanKimLab/hisat2;

· ZqF2017 opened on Sep 26, 2025

long time no result , and big running memory usage?

Status: Open.

#460 In DaehwanKimLab/hisat2;

· nianxt opened on Aug 7, 2025

HISAT2 missed reads which can be aligned to genome

Status: Open.

#459 In DaehwanKimLab/hisat2;

· santataRU opened on Jul 9, 2025

max-intronlen controls "concordant pair" alignment flags - that should not be the case

Status: Open.

#458 In DaehwanKimLab/hisat2;

· therealgenna opened on Jul 8, 2025

error running hisat2-align-s Error reading _rstarts[] array: 7876, 7896

Status: Open.

#457 In DaehwanKimLab/hisat2;

· jazberna1 opened on Jul 2, 2025

Error during index built

Status: Open.

#456 In DaehwanKimLab/hisat2;

· desmodus1984 opened on Jun 26, 2025

memory usage hisat2-align died with signal 9 (KILL)

Status: Open.

#455 In DaehwanKimLab/hisat2;

· murheisa opened on Jun 14, 2025

Errors when chromosome length is >2G

Status: Open.

#454 In DaehwanKimLab/hisat2;

· xiekunwhy opened on Jun 4, 2025