Baoxing Song

If it is not possible to randomly split the database, maybe split it according to similar sequence clusters?

Thanks, by doing this, it is really significantly faster.

Thanks for this feedback. You may need to ask the https://www.biokotlin.org/ biokotlin team for this specific help.

Thanks for your feedback. AnchorWave has not been developed to check genome duplication. You should know the whole genome duplications before running AnchorWave. If you expect Saharan has a triplication,...

Thanks for giving AnchorWave a try. I will set a specific parameter for bacteria in the future version. But currently, we are using "^(\\S*)\t([\\s\\S]*)\tCDS\t(\\S*)\t(\\S*)\t(\\S*)\t(\\S*)\t(\\S*)\t([\s\S]*)Parent=([abcdefghijklmnopqrstuvwxyzABCDEFGHIJKLMNOPQRSTUVWXYZ0123456789.:_-]+)" to parse the CDS lines. And...

Hi, thanks for giving AnchorWave a try. The format of GCF_003119195.2_ASM311919v2_genomic.gff is different from what AnchorWave expects. Every gene has the same ID "gene-". I am not sure I could...

Yes, it can be used for that aim. ---- Replied Message ---- | From | chujia ***@***.***> | | Date | 02/09/2024 03:06 | | To | baoxingsong/AnchorWave ***@***.***> |...

please pay attention to the memory cost.

Sorry, but I could not understand your question.

The one with higher continuity would be preferred.