mgnify-amplicon-taxonomic-summary-tables/main
v0.1

View on GitHub Download RO-Crate Run on Galaxy
Workflow Type: Galaxy

This workflow creates taxonomic summary tables out of the amplicon pipeline results.

SEEK ID: https://workflowhub.eu/workflows/1269?version=1

Inputs

ID Name Description Type
OTU tables #main/OTU tables OTU tables.
  • array containing
    • File
Phylum level taxonomic abundance summary table name #main/Phylum level taxonomic abundance summary table name specifies the name of taxonomic summary file, for phylum level.
  • string
Taxonomic abundance summary table name #main/Taxonomic abundance summary table name specifies the name of taxonomic summary file.
  • string

Steps

ID Name Description
3 Query Tabular toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.3.2
4 Text reformatting toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1
5 Text reformatting toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1
6 Group Grouping1
7 Column join toolshed.g2.bx.psu.edu/repos/iuc/collection_column_join/collection_column_join/0.0.3
8 Filter Tabular toolshed.g2.bx.psu.edu/repos/iuc/filter_tabular/filter_tabular/3.3.1
9 Text reformatting toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1
10 Text reformatting toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1
11 Column join toolshed.g2.bx.psu.edu/repos/iuc/collection_column_join/collection_column_join/0.0.3
12 Text reformatting toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.3+galaxy1

Outputs

ID Name Description Type
Taxonomic abundance summary table #main/Taxonomic abundance summary table n/a
  • File
phylum level taxonomic abundance summary table #main/phylum level taxonomic abundance summary table n/a
  • File

Version History

v0.1 (earliest) Created 4th Feb 2025 at 03:01 by WorkflowHub Bot

Updated to v0.1


Frozen v0.1 9171827
help Creators and Submitter
Creator
  • Rand Zoabi
Submitter
License
MIT License
Activity

Views: 13   Downloads: 3   Runs: 0

Created: 4th Feb 2025 at 03:01

help Tags

This item has not yet been tagged.

help Attributions

None

Total size: 32.8 KB
Powered by
 (v.1.16.0-main)
About WorkflowHub | Acknowledgements | Credits | Terms & Conditions | Privacy Policy | Cite us | Contact us
Copyright © 2008 - 2024 The University of Manchester and HITS gGmbH