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sage configs
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| { | |
| "database": { | |
| "bucket_size": 8192, | |
| "enzyme": { | |
| "missed_cleavages": 2, | |
| "min_len": 7, | |
| "max_len": 35, | |
| "cleave_at": "KR", | |
| "restrict": "P" | |
| }, | |
| "fragment_min_mz": 150.0, | |
| "fragment_max_mz": 2000.0, | |
| "peptide_min_mass": 500.0, | |
| "peptide_max_mass": 5000.0, | |
| "ion_kinds": [ | |
| "b", | |
| "y" | |
| ], | |
| "min_ion_index": 2, | |
| "max_variable_mods": 3, | |
| "static_mods": { | |
| "C": 57.0215 | |
| }, | |
| "variable_mods": { | |
| "M": [15.994] | |
| }, | |
| "decoy_tag": "rev_", | |
| "generate_decoys": true | |
| }, | |
| "precursor_tol": { | |
| "ppm": [ | |
| -20.0, | |
| 20.0 | |
| ] | |
| }, | |
| "fragment_tol": { | |
| "ppm": [ | |
| -20.0, | |
| 20.0 | |
| ] | |
| }, | |
| "quant": { | |
| "lfq": true | |
| }, | |
| "deisotope": true, | |
| "min_peaks": 15, | |
| "max_peaks": 250, | |
| "max_fragment_charge": 1, | |
| "min_matched_peaks": 4, | |
| "predict_rt": true, | |
| "wide_window": true | |
| } |
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| { | |
| "database": { | |
| "bucket_size": 8192, | |
| "enzyme": { | |
| "missed_cleavages": 20, | |
| "min_len": 9, | |
| "max_len": 20, | |
| "cleave_at": "ACDEFGHIKLMNPQRSTVWY", | |
| "semi_enzymatic": true | |
| }, | |
| "fragment_min_mz": 150.0, | |
| "fragment_max_mz": 2000.0, | |
| "peptide_min_mass": 500.0, | |
| "peptide_max_mass": 5000.0, | |
| "ion_kinds": [ | |
| "b", | |
| "y" | |
| ], | |
| "min_ion_index": 2, | |
| "max_variable_mods": 3, | |
| "variable_mods": { | |
| "M": [15.994], | |
| "N": [0.984016], | |
| "Q": [0.984016] | |
| }, | |
| "decoy_tag": "rev_", | |
| "generate_decoys": true | |
| }, | |
| "precursor_tol": { | |
| "ppm": [ | |
| -20.0, | |
| 20.0 | |
| ] | |
| }, | |
| "fragment_tol": { | |
| "ppm": [ | |
| -20.0, | |
| 20.0 | |
| ] | |
| }, | |
| "quant": { | |
| "lfq": true | |
| }, | |
| "deisotope": true, | |
| "min_peaks": 15, | |
| "max_peaks": 250, | |
| "max_fragment_charge": 1, | |
| "min_matched_peaks": 4, | |
| "predict_rt": true, | |
| "wide_window": false | |
| } |
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| { | |
| "database": { | |
| "bucket_size": 8192, | |
| "enzyme": { | |
| "missed_cleavages": 30, | |
| "min_len": 9, | |
| "max_len": 30, | |
| "cleave_at": "ACDEFGHIKLMNPQRSTVWY", | |
| "semi_enzymatic": true, | |
| "restrict": null | |
| }, | |
| "fragment_min_mz": 150.0, | |
| "fragment_max_mz": 2000.0, | |
| "peptide_min_mass": 500.0, | |
| "peptide_max_mass": 5000.0, | |
| "ion_kinds": [ | |
| "b", | |
| "y" | |
| ], | |
| "min_ion_index": 2, | |
| "max_variable_mods": 3, | |
| "variable_mods": {}, | |
| "decoy_tag": "rev_", | |
| "generate_decoys": true | |
| }, | |
| "precursor_tol": { | |
| "da": [ | |
| -10, | |
| 100 | |
| ] | |
| }, | |
| "fragment_tol": { | |
| "ppm": [ | |
| -15.0, | |
| 15.0 | |
| ] | |
| }, | |
| "quant": { | |
| "lfq": true | |
| }, | |
| "deisotope": true, | |
| "min_peaks": 15, | |
| "max_peaks": 150, | |
| "max_fragment_charge": 1, | |
| "min_matched_peaks": 3, | |
| "predict_rt": true, | |
| "wide_window": false | |
| } |
Author
jspaezp
commented
Feb 3, 2025
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