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Figure 1. The workflow of PTMiner. The part in the red box shows the process of the localization algorithm, in which the red arrows represent iterative updating of prior probabilities
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Figure 2. Setting the search parameters (open search)
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Figure 3. Setting the PTMiner parameters (open search)
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Figure 4. An example of filtered_result.txt displayed by Excel. Since one line of the original result file is too wide to display, it is cut into two lines to show here
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Figure 5. An example loc_result.txt displayed by Excel. Since one line of the original result file is too wide to display, it is cut into two lines to show here
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Figure 6. An example anno_result.txt displayed by Excel. Since one line of the original result file is too wide to display, the middle part of the lines are omitted here
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Figure 7. An example filtered_summary.txt displayed by Excel
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Figure 8. Setting the search parameters (closed search)
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Figure 9. Setting the PTMiner parameters (closed search)
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Figure 10. Selecting the target modifications
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Figure 11. Selecting the site specificities for each modification
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Figure 12. An example loc_result.txt displayed by Excel. Since one line of the original result file is too wide to display, the middle part of the lines are omitted here
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