Workflow Type: Galaxy
Open
MaxQuant and MSstats for the analysis of label-free data
Associated Tutorial
This workflows is part of the tutorial Proteomics: MaxQuant and MSstats LFQ workflow, available in the GTN
Thanks to...
Tutorial Author(s): Melanie Föll, Matthias Fahrner
Inputs
ID | Name | Description | Type |
---|---|---|---|
annotation file | #main/annotation file | n/a |
|
comparison matrix | #main/comparison matrix | n/a |
|
fasta protein database | #main/fasta protein database | n/a |
|
raw files | #main/raw files | n/a |
|
Steps
ID | Name | Description |
---|---|---|
4 | MaxQuant | toolshed.g2.bx.psu.edu/repos/galaxyp/maxquant/maxquant/1.6.10.43+galaxy4 |
5 | Select | Grep1 |
6 | Select | Grep1 |
7 | Replace Text | toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_column/1.1.3 |
8 | Replace Text | toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_column/1.1.3 |
9 | MSstats | toolshed.g2.bx.psu.edu/repos/galaxyp/msstats/msstats/3.22.0.1 |
10 | Datamash | toolshed.g2.bx.psu.edu/repos/iuc/datamash_ops/datamash_ops/datamash_ops/1.0.6 |
11 | Summary Statistics | Summary_Statistics1 |
12 | Replace Text | toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_column/1.1.3 |
13 | Replace Text | toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_column/1.1.3 |
14 | Filter | Filter1 |
15 | Filter | Filter1 |
16 | Filter | Filter1 |
17 | Filter | Filter1 |
18 | Filter | Filter1 |
19 | Cut | Cut1 |
20 | Cut | Cut1 |
21 | Join | toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2 |
22 | Join | toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2 |
23 | heatmap2 | toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_heatmap2/ggplot2_heatmap2/3.0.1 |
24 | UniProt | toolshed.g2.bx.psu.edu/repos/bgruening/uniprot_rest_interface/uniprot/0.2 |
25 | heatmap2 | toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_heatmap2/ggplot2_heatmap2/3.0.1 |
26 | UniProt | toolshed.g2.bx.psu.edu/repos/bgruening/uniprot_rest_interface/uniprot/0.2 |
27 | FASTA-to-Tabular | toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab/1.1.1 |
28 | FASTA-to-Tabular | toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab/1.1.1 |
Outputs
ID | Name | Description | Type |
---|---|---|---|
_anonymous_output_1 | #main/_anonymous_output_1 | n/a |
|
_anonymous_output_10 | #main/_anonymous_output_10 | n/a |
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_anonymous_output_11 | #main/_anonymous_output_11 | n/a |
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_anonymous_output_12 | #main/_anonymous_output_12 | n/a |
|
_anonymous_output_13 | #main/_anonymous_output_13 | n/a |
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_anonymous_output_14 | #main/_anonymous_output_14 | n/a |
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_anonymous_output_15 | #main/_anonymous_output_15 | n/a |
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_anonymous_output_16 | #main/_anonymous_output_16 | n/a |
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_anonymous_output_17 | #main/_anonymous_output_17 | n/a |
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_anonymous_output_18 | #main/_anonymous_output_18 | n/a |
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_anonymous_output_19 | #main/_anonymous_output_19 | n/a |
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_anonymous_output_2 | #main/_anonymous_output_2 | n/a |
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_anonymous_output_20 | #main/_anonymous_output_20 | n/a |
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_anonymous_output_21 | #main/_anonymous_output_21 | n/a |
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_anonymous_output_22 | #main/_anonymous_output_22 | n/a |
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_anonymous_output_23 | #main/_anonymous_output_23 | n/a |
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_anonymous_output_24 | #main/_anonymous_output_24 | n/a |
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_anonymous_output_25 | #main/_anonymous_output_25 | n/a |
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_anonymous_output_26 | #main/_anonymous_output_26 | n/a |
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_anonymous_output_27 | #main/_anonymous_output_27 | n/a |
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_anonymous_output_28 | #main/_anonymous_output_28 | n/a |
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_anonymous_output_29 | #main/_anonymous_output_29 | n/a |
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_anonymous_output_3 | #main/_anonymous_output_3 | n/a |
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_anonymous_output_30 | #main/_anonymous_output_30 | n/a |
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_anonymous_output_31 | #main/_anonymous_output_31 | n/a |
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_anonymous_output_32 | #main/_anonymous_output_32 | n/a |
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_anonymous_output_33 | #main/_anonymous_output_33 | n/a |
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_anonymous_output_34 | #main/_anonymous_output_34 | n/a |
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_anonymous_output_4 | #main/_anonymous_output_4 | n/a |
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_anonymous_output_5 | #main/_anonymous_output_5 | n/a |
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_anonymous_output_6 | #main/_anonymous_output_6 | n/a |
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_anonymous_output_7 | #main/_anonymous_output_7 | n/a |
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_anonymous_output_8 | #main/_anonymous_output_8 | n/a |
|
_anonymous_output_9 | #main/_anonymous_output_9 | n/a |
|
Version History
3.0 (earliest) Created 25th Jun 2024 at 11:14 by Helena Rasche
Added/updated 4 files
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Views: 363 Downloads: 80
Created: 25th Jun 2024 at 11:14
Last updated: 25th Jun 2024 at 11:14
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