Workflow 1: Further Quality Control [16S Microbial Analysis With Mothur]
Version 1

Workflow Type: Galaxy

16S Microbial Analysis with mothur (short)

The workflows in this collection are from the '16S Microbial Analysis with mothur' tutorial for analysis of 16S data (Saskia Hiltemann, Bérénice Batut, Dave Clements), adapted for piepline use on galaxy australia (Ahmed Mehdi). The workflows developed in galaxy use mothur software package developed by Schloss et al https://pubmed.ncbi.nlm.nih.gov/19801464/.

Please also refer to the 16S tutorials available at Galaxy https://training.galaxyproject.org/training-material/topics/metagenomics/tutorials/mothur-miseq-sop-short/tutorial.html and [https://training.galaxyproject.org/training-material/topics/metagenomics/tutorials/mothur-miseq-sop/tutorial.html

Inputs

ID Name Description Type
Contigs #main/Contigs n/a
  • File
Groups #main/Groups n/a
  • File

Steps

ID Name Description
2 Summary.seqs toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_seqs/mothur_summary_seqs/1.39.5.0
3 Screen.seqs toolshed.g2.bx.psu.edu/repos/iuc/mothur_screen_seqs/mothur_screen_seqs/1.39.5.1
4 Summary.seqs toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_seqs/mothur_summary_seqs/1.39.5.0
5 Unique.seqs toolshed.g2.bx.psu.edu/repos/iuc/mothur_unique_seqs/mothur_unique_seqs/1.39.5.0
6 Count.seqs toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_seqs/mothur_count_seqs/1.39.5.0

Outputs

ID Name Description Type
_anonymous_output_1 #main/_anonymous_output_1 n/a
  • File
_anonymous_output_2 #main/_anonymous_output_2 n/a
  • File
_anonymous_output_3 #main/_anonymous_output_3 n/a
  • File
_anonymous_output_4 #main/_anonymous_output_4 n/a
  • File
_anonymous_output_5 #main/_anonymous_output_5 n/a
  • File
_anonymous_output_6 #main/_anonymous_output_6 n/a
  • File
_anonymous_output_7 #main/_anonymous_output_7 n/a
  • File
_anonymous_output_8 #main/_anonymous_output_8 n/a
  • File

Version History

Version 1 (earliest) Created 9th Nov 2023 at 05:04 by Sarah Williams

Initial commit


Open master c8d3001
help Creators and Submitter
Creators
  • Saskia Hiltemann
  • Bérénice Batut
  • Dave Clements
  • Ahmed Mehdi
Submitter
Activity

Views: 893

Created: 9th Nov 2023 at 05:04

Last updated: 9th Nov 2023 at 05:13

help Attributions

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Total size: 16.8 KB
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