Hi,
This request is for some kind of utility that can be highly beneficial for genome manual curation. In particular, the tangles in the graph that are not resolved get lost in the hifiasm output. Once the contigs are scaffolded, it is very hard to manually place these sequences. However, it is likely that the unitig graph often contains information about the approximately position (though not specific order and orientation) of these elements, e.g. they all belong to chr2 centromere. This information would allow more confidently placing these elements during manual curation, speeding up the process.
Thanks!
Hi, This request is for some kind of utility that can be highly beneficial for genome manual curation. In particular, the tangles in the graph that are not resolved get lost in the hifiasm output. Once the contigs are scaffolded, it is very hard to manually place these sequences. However, it is likely that the unitig graph often contains information about the approximately position (though not specific order and orientation) of these elements, e.g. they all belong to chr2 centromere. This information would allow more confidently placing these elements during manual curation, speeding up the process. Thanks!