MSI Workflow: spatial distribution 1.0
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Run on GalaxyMass spectrometry imaging: Examining the spatial distribution of analytes
Associated Tutorial
This workflows is part of the tutorial Mass spectrometry imaging: Examining the spatial distribution of analytes, available in the GTN
Thanks to...
Tutorial Author(s): Melanie Föll, Maren Stillger
Tutorial Contributor(s): Helena Rasche, Saskia Hiltemann, Björn Grüning, Bérénice Batut, Simon Bray, Melanie Föll
Funder(s): ELIXIR Europe, University of Freiburg
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| Annotation | #main/Annotation | n/a |
|
| Uploaded Composite Dataset (imzml) | #main/Uploaded Composite Dataset (imzml) | n/a |
|
| z features | #main/m/z features | n/a |
|
Steps
| ID | Name | Description |
|---|---|---|
| 3 | MSI Qualitycontrol | toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/2.6.0.1 |
| 4 | MSI plot spectra | toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_spectra_plots/cardinal_spectra_plots/2.6.0.0 |
| 5 | MSI filtering | toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_filtering/cardinal_filtering/2.6.0.0 |
| 6 | MSI plot spectra | toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_spectra_plots/cardinal_spectra_plots/2.6.0.0 |
| 7 | MSI data exporter | toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_data_exporter/cardinal_data_exporter/2.6.0.0 |
| 8 | MSI mz images | toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_mz_images/cardinal_mz_images/2.6.0.0 |
| 9 | Filter | Filter1 |
| 10 | MSI mz images | toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_mz_images/cardinal_mz_images/2.6.0.0 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| _anonymous_output_10 | #main/_anonymous_output_10 | n/a |
|
| _anonymous_output_11 | #main/_anonymous_output_11 | n/a |
|
| _anonymous_output_12 | #main/_anonymous_output_12 | n/a |
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| _anonymous_output_13 | #main/_anonymous_output_13 | n/a |
|
| _anonymous_output_4 | #main/_anonymous_output_4 | n/a |
|
| _anonymous_output_5 | #main/_anonymous_output_5 | n/a |
|
| _anonymous_output_6 | #main/_anonymous_output_6 | n/a |
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| _anonymous_output_7 | #main/_anonymous_output_7 | n/a |
|
| _anonymous_output_8 | #main/_anonymous_output_8 | n/a |
|
| _anonymous_output_9 | #main/_anonymous_output_9 | n/a |
|
Version History
master
Creators and Submitter
Views: 1116 Downloads: 185 Runs: 0
Created: 2nd Jun 2025 at 11:00
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Teams: Galaxy Training Network
Organizations: Galaxy
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