charcoal
charcoal copied to clipboard
can we use greyhound or MAGsearch to identify/correlate/analyze contamination?
if we find suspected contamination, it would be interesting to ask --
- does this contamination correlate in any way with the rest of the genome content, across all available metagenomes? this is in some sense a question of pairwise correlation/quilt plots, and maybe there needs to be a statistical test involved. (the searching could be done with MAGsearch)
- what other metagenomes map to this genome, if it's a public genome? (greyhound)
I think for v1, this is a bit beyond the scope of charcoal. But something to keep in mind!