MSI Finding Diff Analytes
4.0

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Workflow Type: Galaxy

Mass spectrometry imaging: Finding differential analytes

Associated Tutorial

This workflows is part of the tutorial MSI Finding Diff Analytes, available in the GTN

Thanks to...

Tutorial Author(s): Melanie Föll

gtn star logo followed by the word workflows

SEEK ID: https://dev.workflowhub.eu/workflows/1123?version=1

Inputs

ID Name Description Type
Glycan_IDs Glycan_IDs n/a
  • File
all_files all_files n/a
  • File
control control n/a
  • File
treated treated n/a
  • File

Steps

ID Name Description
10 MSI classification toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_classification/cardinal_classification/1.12.1.3
11 MSI segmentation toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_segmentations/cardinal_segmentations/1.12.1.3
12 Filter Filter1
13 Join two files toolshed.g2.bx.psu.edu/repos/bgruening/join_files_on_column_fuzzy/join_files_on_column_fuzzy/1.0.1
14 Summary Statistics Summary_Statistics1
15 MSI mz images toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_mz_images/cardinal_mz_images/1.12.1.2
16 Select Grep1
17 MSI mz images toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_mz_images/cardinal_mz_images/1.12.1.2
4 MSI combine toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_combine/cardinal_combine/1.12.1.3
5 MSI preprocessing toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_preprocessing/cardinal_preprocessing/1.12.1.3
6 MSI Qualitycontrol toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_quality_report/cardinal_quality_report/1.12.1.3
7 MALDIquant preprocessing toolshed.g2.bx.psu.edu/repos/galaxyp/maldi_quant_preprocessing/maldi_quant_preprocessing/1.18.0.3
8 MALDIquant peak detection toolshed.g2.bx.psu.edu/repos/galaxyp/maldi_quant_peak_detection/maldi_quant_peak_detection/1.18.0.4
9 MSI preprocessing toolshed.g2.bx.psu.edu/repos/galaxyp/cardinal_preprocessing/cardinal_preprocessing/1.12.1.3

Outputs

ID Name Description Type
_anonymous_output_3 _anonymous_output_3 n/a
  • File
_anonymous_output_4 _anonymous_output_4 n/a
  • File
_anonymous_output_5 _anonymous_output_5 n/a
  • File
_anonymous_output_6 _anonymous_output_6 n/a
  • File
_anonymous_output_7 _anonymous_output_7 n/a
  • File
_anonymous_output_8 _anonymous_output_8 n/a
  • File
_anonymous_output_9 _anonymous_output_9 n/a
  • File
_anonymous_output_10 _anonymous_output_10 n/a
  • File
_anonymous_output_11 _anonymous_output_11 n/a
  • File
_anonymous_output_14 _anonymous_output_14 n/a
  • File
_anonymous_output_15 _anonymous_output_15 n/a
  • File
_anonymous_output_16 _anonymous_output_16 n/a
  • File
_anonymous_output_17 _anonymous_output_17 n/a
  • File
_anonymous_output_18 _anonymous_output_18 n/a
  • File
_anonymous_output_19 _anonymous_output_19 n/a
  • File
_anonymous_output_20 _anonymous_output_20 n/a
  • File

Version History

4.0 (earliest) Created 25th Jun 2024 at 11:00 by Helena Rasche

Added/updated 4 files


Open master 77b12b8
help Creators and Submitter
Creators
Not specified
Submitter
Discussion Channel
GTN Matrix
Tools
Cardinal
MALDIquant
License
Creative Commons Attribution 4.0 International
Activity

Views: 299   Downloads: 91

Created: 25th Jun 2024 at 11:00

Last updated: 25th Jun 2024 at 11:00

help Attributions

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Total size: 144 KB
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