ahramkim

LIS and LIA calculation needs PAE information, which is in json file (colabfold) or pkl file (original alphafold-multimer). Unfortunately, without json of pkl files, LIS and LIA can't be calculated....

Thanks for letting me know! They seem interesting! I am wondering whether they work well for the interaction including flexible regions such as IDR. I can take a look at...

I found that AlphaFold-Multimer often performed better than AF3 in my tested datasets (challenging candidates with a lot of flexible region). Depending on the MSA quality and depth in the...