Search results

lifting-over hap2 to hap1 coordinates of a T2T genome

Status: Open.

#84 In liguowang/CrossMap;

· Overcraft90 opened on Mar 26, 2026

Empty alternate allele after liftOver with CrossMap

Status: Open.

#83 In liguowang/CrossMap;

· garyzhubc opened on Oct 14, 2025

No change of chromosomal position with liftover on VCF

Status: Open.

#81 In liguowang/CrossMap;

· Mannyari opened on Jul 31, 2025

MAF insertions are broken after liftover

Status: Open.

#80 In liguowang/CrossMap;

· dheiman opened on May 23, 2025

Coordinate Conversion Before/After Variant Calling?

Status: Open.

#78 In liguowang/CrossMap;

· DayTimeMouse opened on Oct 18, 2024

Regarding output of the file generated

Status: Open.

#77 In liguowang/CrossMap;

· Proy321 opened on Sep 17, 2024

--chromid a (as-is) behavior is more like "match query" than "as-is" and causes problems under certain conditions

Status: Open.

#74 In liguowang/CrossMap;

· pickettbd opened on Jul 24, 2024

bed parsing is too rigid for 12 or 20 columns and files with 13-19 or 21+ columns are ignored

Status: Open.

#73 In liguowang/CrossMap;

· pickettbd opened on Jul 24, 2024

Failed to map entries with no explanation

Status: Open.

#72 In liguowang/CrossMap;

· PeterSu92 opened on May 13, 2024

CrossMap breaks VCF by replacing "*" genotype with a duplicate variant allele

Status: Open.

#70 In liguowang/CrossMap;

· gnxsf opened on Apr 22, 2024

MAF liftover resulting in same reference and alternate allele

Status: Open.

#68 In liguowang/CrossMap;

· skanwal opened on Feb 26, 2024

Installing v0.7.0 makes python 3.11 coredump when help('modules') is called

Status: Open.

#67 In liguowang/CrossMap;

· t-kreitler opened on Jan 30, 2024