diff --git a/examples/README.md b/examples/README.md index 5e907fe..a009baa 100644 --- a/examples/README.md +++ b/examples/README.md @@ -1,21 +1,12 @@ -# IDR generation -From sequence model -``` -python evodiff/conditional_generation.py --model-type oa_ar_640M --cond-task idr -``` -From MSA model -``` -TODO -``` +# Scaffolding Task Inputs -# Scaffolding Task -Benchmark conditional generation runs from Table S9 https://www.nature.com/articles/s41586-023-06415-8 +Below we provide all the examples we generated for the scaffolding benchmark from Table S9 https://www.nature.com/articles/s41586-023-06415-8 -Start/end indexes are adjusted for the protein sequence extracted from PDB files +Start/end indexes are adjusted in cases where the protein sequence extracted from PDB files was not in Chain A Corresponding motif domains held frozen for each scaffolding task are listed for reference -All motifs were generated in a 50-100 residue scaffold +All EvoDiff-Seq motifs were generated in a 50-100 residue scaffold, and All EvoDiff-MSA motifs were subsampled to a max length of 150 residues, for fair comparison. ### PDB CODE: 1PRW Domains: 16-35 (FSLFDKDGDGTITTKELGTV), 52-71 (INEVDADGNGTIDFPEFLTM)