JL Weissman

I guess my question would be what an average max growth rate of a co-assembly is actually telling you? I'm not really sure how one would interpret this tbh (especially...

Hi Yes - this would be pretty easy by writing an Rscript that takes the relevant arguments and does this using the `commandArgs()` function in R. For example, a minimal...

You can use either MAGs or assembled metagenomes - although be sure to read the [doumentation](https://jlw-ecoevo.github.io/gRodon-vignette) as the settings you should use for each and their interpretation are different

Sorry I missed this! 1. I doubt that you will see much difference including or excluding them unless it is happening a lot with ribosomal proteins (but you could check...

Yes - though those changes with depth are in a large part driven by changes in temperature. This is forthcoming, but I am currently working to redefine the cutoff used...

Also just to be clear - I strongly recommend shifting to MMv2 for all metagenomic prediction

Yes - unless you suspect there's contamination in the bins/mags in which case MMv2 is probably a safer option for those as well.

Hi! Thanks for your interest in gRodon. Your explanation is 100% correct. How much are they varying? In my experience these values should remain pretty stable. If you would like...

Out of curiosity, what is the range of ConsistencyHE values you get for these metagenomes?

Yes, these data suggest that the issue is probably n_le (notice in that data the wider variance in CUB for the low-expressed genes than CUBHE for the high-expressed genes). I...