Workflow Type: Common Workflow Language
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This repository hosts Metabolome Annotation Workflow (MAW). The workflow takes MS2 .mzML format data files as an input in R. It performs spectral database dereplication using R Package Spectra and compound database dereplication using SIRIUS OR MetFrag . Final candidate selection is done in Python using RDKit and PubChemPy.
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Inputs
ID | Name | Description | Type |
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python_script | n/a | n/a |
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r_script | n/a | n/a |
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mzml_files | n/a | n/a |
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gnps_file | n/a | n/a |
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hmdb_file | n/a | n/a |
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mbank_file | n/a | n/a |
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ppmx | n/a | n/a |
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collision_info | n/a | n/a |
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db_name | n/a | n/a |
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db_path | n/a | n/a |
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Steps
ID | Name | Description |
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analysis | n/a | n/a |
Outputs
ID | Name | Description | Type |
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candidate_files | n/a | n/a |
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result | n/a | n/a |
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Version History
main @ 2da7fba (latest) Created 1st Aug 2023 at 15:21 by Mahnoor Zulfiqar
updated with all versions information
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main
2da7fba
main @ 1be2bd3 (earliest) Created 19th Jun 2023 at 21:09 by Mahnoor Zulfiqar
use docker to run MAW
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main
1be2bd3
Creators and Submitter
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Citation
Zulfiqar, M., Crusoe, M. R., Gadelha, L., Steinbeck, C., Sorokina, M., & Peters, K. (2023). Metabolome Annotation Workflow (MAW). WorkflowHub. https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.510.2
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Views: 2842 Downloads: 368
Created: 19th Jun 2023 at 21:09
Last updated: 1st Aug 2023 at 15:21
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