Profiler for Soil metagenomes

[EorgeKit]

Hello @luispedro @unode

What's the recommendation when dealing with soil metagenomes since there is no particular predefined profiler for it or any other metagenome that has no predefined profiler for that matter?

[luispedro]

Hi @EorgeKit,

For soil in particular, I would really recommend going through the assembly+MAG building route (i.e., a de novo approach) rather than profiling against existing databases.

[EorgeKit]

Thanks @luispedro
t seems as though ngless is not customized for denovo , or I am missing something?

[luispedro]

Yes, there is more support for reference-based approaches, but you can assemble too.

You can ask more open ended questions at

https://groups.google.com/g/ngless