examples/alphafold2.md
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@@ -93,6 +93,14 @@ To use the run script, specify the path to the fasta file and an output directy
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run_alphafold.sh <path to fasta file> <path to an output directory>
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```
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+Other Useful variables used by this script :
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+| variable | use |
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+| ------------------ | ---------------------------------------- |
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+| ALPHAFOLD_DB | Set alternative path to database files |
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+| ALPHAFOLD_PTM | Use pTM models when set |
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+| ALPHAFOLD_PRESET | use reduced_dbs or CASP14 databases |
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+| ALPHAFOLD_TEMPLATE | date string for limiting template search | .
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+
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### Creating your own run_alphafold script
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You can use our run_alphafold script template here to create your own run script using the SBGrid installation of Alphafold2.