performing taxonomy classifications on vrhyme bins

[AJWing]

Hi again! Once you've finished binning with this tool, how does one typically go about trying to assign taxonomy to these? Do you concatenate all of the contigs within a vrhyme bin together and then use something like vcontact2? Just wondering what the most appropriate approach is with the vrhyme binning tool in mind. Thanks in advance!

[KrisKieft]

Hi,

It's hard to suggest anything because there are many options and it varies depending on your goal/data. Yes, one approach is to concatenate bins and use vcontact2. Keep an eye on how proteins are predicted and ensure you don't get false connections with proteins that have strings of X/N at junction sites.