Thanks for your work. However, as I tried to conduct protein structure clustering, the program always returns clusters based on proteins' substructure. I am wondering how can I get the cluster based on global structures?
--alignment-type 1 seems can get the global results based on TM align. Here is the code that I used:
./foldseek/bin/foldseek easy-cluster ./protein res tmp --lddt-threshold 0.5 --c 1 --alignment-type 1
Thanks for your work. However, as I tried to conduct protein structure clustering, the program always returns clusters based on proteins' substructure. I am wondering how can I get the cluster based on global structures?
--alignment-type 1 seems can get the global results based on TM align. Here is the code that I used:
./foldseek/bin/foldseek easy-cluster ./protein res tmp --lddt-threshold 0.5 --c 1 --alignment-type 1
However, the results I get look like:
And I would like to get the format of the clusters similar to:
Thanks.