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examples/alphafold2.md
... | ... | @@ -93,6 +93,14 @@ To use the run script, specify the path to the fasta file and an output directy |
93 | 93 | run_alphafold.sh <path to fasta file> <path to an output directory> |
94 | 94 | ``` |
95 | 95 | |
96 | +Other Useful variables used by this script : |
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97 | +| variable | use | |
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98 | +| ------------------ | ---------------------------------------- | |
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99 | +| ALPHAFOLD_DB | Set alternative path to database files | |
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100 | +| ALPHAFOLD_PTM | Use pTM models when set | |
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101 | +| ALPHAFOLD_PRESET | use reduced_dbs or CASP14 databases | |
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102 | +| ALPHAFOLD_TEMPLATE | date string for limiting template search | . |
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103 | + |
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96 | 104 | ### Creating your own run_alphafold script |
97 | 105 | |
98 | 106 | You can use our run_alphafold script template here to create your own run script using the SBGrid installation of Alphafold2. |