Juicer files only allow manual curation of first scaffold in JBAT

c-zhou / yahs

Yet another Hi-C scaffolding tool

MIT License

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Juicer files only allow manual curation of first scaffold in JBAT #86

Open Rhia15 opened 2 months ago

Rhia15 commented 2 months ago

Hi there,

I have ran the run_yahs.sh file with the test assemblies provided and generated a .hic and .assembly file. After putting both files in JBAT, I noticed that you can only manually edit the first scaffold and the rest doesn't have scaffold outlines or anything to suggest that we can move different segments around. I have also tried this with my own assembly with the same results. I was wondering if this is normal? or should I be expecting to move all the scaffolds around?

Thank you!

MboiTui commented 1 month ago

Hello,

Try and provide a bit more info and maybe screenshots of what it looks like in JBAT

c-zhou commented 1 month ago

Hi @Rhia15,

Which version of Juicebox are you using? I know there are some problems with newer versions of JuiceBox. You may have a look at the discussions in this thread https://github.com/c-zhou/yahs/issues/4#issuecomment-997503060.

Best, Chenxi