Workflow 3: Functional Information (quick)
Version 1

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Workflow Type: Galaxy

Galaxy workflow

SEEK ID: https://dev.workflowhub.eu/workflows/779?version=1

Inputs

ID Name Description Type
Gene Family abundance Gene Family abundance n/a
  • File
Pathway abundance Pathway abundance n/a
  • File
Predicted taxon relative abundances Predicted taxon relative abundances n/a
  • File

Steps

ID Name Description
3 Cut Cut1
4 Renormalize toolshed.g2.bx.psu.edu/repos/iuc/humann_renorm_table/humann_renorm_table/3.7+galaxy0
5 Regroup toolshed.g2.bx.psu.edu/repos/iuc/humann_regroup_table/humann_regroup_table/3.7+galaxy0
6 Renormalize toolshed.g2.bx.psu.edu/repos/iuc/humann_renorm_table/humann_renorm_table/3.7+galaxy0
7 Replace toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_find_and_replace/1.1.4
8 Rename features toolshed.g2.bx.psu.edu/repos/iuc/humann_rename_table/humann_rename_table/3.7+galaxy0
9 Split a HUMAnN table toolshed.g2.bx.psu.edu/repos/iuc/humann_split_stratified_table/humann_split_stratified_table/3.7+galaxy0
10 Unpack pathway abundances toolshed.g2.bx.psu.edu/repos/iuc/humann_unpack_pathways/humann_unpack_pathways/3.7+galaxy0
11 Combination of taxonomic and metabolic assignations for gene families toolshed.g2.bx.psu.edu/repos/bebatut/combine_metaphlan2_humann2/combine_metaphlan2_humann2/0.2.0
12 Select Grep1
13 Select Grep1
14 Select Grep1

Outputs

ID Name Description Type
_anonymous_output_1 _anonymous_output_1 n/a
  • File
_anonymous_output_2 _anonymous_output_2 n/a
  • File
_anonymous_output_3 _anonymous_output_3 n/a
  • File
_anonymous_output_4 _anonymous_output_4 n/a
  • File
Split a HUMAnN table on input dataset(s): Stratified table Split a HUMAnN table on input dataset(s): Stratified table n/a
  • File
Split a HUMAnN table on input dataset(s): Unstratified table Split a HUMAnN table on input dataset(s): Unstratified table n/a
  • File
_anonymous_output_5 _anonymous_output_5 n/a
  • File
species abundances Combine MetaPhlAn2 and HUMAnN2 outputs on input dataset(s): Gene family abundances related to genus/species abundances 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

Version History

1 (earliest) Created 22nd Apr 2024 at 10:27 by Helena Rasche

Added/updated 3 files


Open master 361b5d1
help Creators and Submitter
Creators
  • Bérénice Batut
  • Pratik Jagtap
  • Subina Mehta
  • Ray Sajulga
  • Emma Leith
  • Praveen Kumar
  • Saskia Hiltemann
  • Paul Zierep
Submitter
Tools
humann
HUMAnN2
License
MIT License
Activity

Views: 42

Created: 22nd Apr 2024 at 10:27

Last updated: 22nd Apr 2024 at 10:27

help Attributions

None

Total size: 32.1 KB
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