mgnify-amplicon-taxonomic-summary-tables/main

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Workflow Type: Galaxy

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

SEEK ID: https://workflowhub.eu/workflows/1269?version=2

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

v0.2 (latest) Created 26th Mar 2025 at 09:52 by WorkflowHub Bot

Updated to v0.2


Frozen v0.2 e168423

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 (MIT)
Activity

Views: 2234   Downloads: 2892   Runs: 0

Created: 4th Feb 2025 at 03:01

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