Base modification parsing: incorrect implicit flag for mixed implicit/explicit modifications, missing…
Base modification parsing: incorrect implicit flag for mixed implicit/explicit modifications, missing…: a task in LegoFlow-SWE (Harbor dataset). The base modification parsing in htslib (MM/ML tags) has a bug where the implicit field returned by bam mods query type is not correct when an alignment…
The task
The base modification parsing in htslib (MM/ML tags) has a bug where the `implicit` field returned by `bam_mods_query_type` is not correct when an alignment contains a mix of modification types with different implicit/explicit modes. For example, if a read has both `C+m.` (implicit mode) and `C+h?` (explicit mode),…
Part of Lego-X/LegoFlow-SWE.