Custom SCG list?

[iwilkie]

Hello,

I'm thinking of running STRONG on some data that I'm working on. I'm using time-series data (metagenomes), but am focussing on one family in particular and not the whole population. I saw a line in the README file which piqued my interest:

The list of single-copy core genes are given as COGs in the data file SnakeNest/scg_data/scg_cogs_to_run.txt as default but this file can be changed.

Could I put in a custom list of SCG specific to the family of interest to select for/filter the reads? Or is this SCG list also used for the binning such that changing it would affect the binning process? If this is not possible, is there a way to use pre-generated bins in the input instead of the raw reads?

Thank you,
Isa