Question about using flashweave with sequencing data of multiple organisms

[AnnaClo]

Hi,
I need to construct a network using sequncing data for multiple organisms, e.g. bacteria, fungi, protists, etc., each obtained from the sequencing of a different amplicon.
I understand that I could imput this data combined in one table to flashweave. I'm doubting if and how flashweave will handle the normalization for differing sequencing depth. Since each organism comes from the sequencing of different amplicons, it should be normalized independently from the other organisms.
If I would do the normalization out of flashweave, I would do clr transformation for bacteria, fungi and protists independently.
What is your advice? How will the flashweave algorithms deal with this kind of data? Is this data suitable for flashweave? Should I apply clr transformations before using flashweave?

Thank you in advance

[jtackm]

Hi Anna,

Yes, FlashWeave supports providing several tables to be normalized independently (inspired by exactly the use case you mentioned). It's unfortunately poorly documented, but can be used like this: learn_network([<bac_data_path>, <fungi_data_path>], meta_data_path; <kwargs...>). Please let me know if this works for you.