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fix typos
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ntxxt authored Mar 21, 2024
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Expand Up @@ -98,7 +98,7 @@ The command above will generate a folder in the current working directory, conta
### As a framework


#### Generate ems-2 embeddings for your protein
#### Generate esm-2 embeddings for your protein
1. Generate fasta sequence in bulk, use script 'get_fasta.py'
```bash
usage: get_fasta.py [-h] pdb_dir output_fasta_name
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model.test(hdf5 = "tmpdir/GNN_esm_prediction.hdf5")
```
### Note about input pdb files
To make sure the mapping between interface residue and ems-2 embeddings are correct, make sure that for all the chains, residue numbering in the PDB file is continuous and starts with residue '1'. We provide a script (scripts/pdb_renumber.py) to do the numbering.
To make sure the mapping between interface residue and esm-2 embeddings is correct, make sure that for all the chains, residue numbering in the PDB file is continuous and starts with residue '1'. We provide a script (scripts/pdb_renumber.py) to do the numbering.

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