Amplicon Tutorial
1.0

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Workflow Type: Galaxy

Analyses of metagenomics data - The global picture

Associated Tutorial

This workflows is part of the tutorial Amplicon Tutorial, available in the GTN

Features

Includes Galaxy Workflow Tests

Thanks to...

Tutorial Author(s): Saskia Hiltemann, Bérénice Batut

SEEK ID: https://dev.workflowhub.eu/workflows/1070?version=1

Inputs

ID	Name	Description	Type
Anguil Soil Sample	Anguil Soil Sample	n/a	File
Pampa Soil Sample	Pampa Soil Sample	n/a	File
SILVA Reference	SILVA Reference	n/a	File
Trainset PDS alignment	Trainset PDS alignment	n/a	File
Trainset PDS taxonomy	Trainset PDS taxonomy	n/a	File

Steps

ID	Name	Description
5	Merge.files	toolshed.g2.bx.psu.edu/repos/iuc/mothur_merge_files/mothur_merge_files/1.36.1.0
6	Make.group	toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_group/mothur_make_group/1.36.1.0
7	Unique.seqs	toolshed.g2.bx.psu.edu/repos/iuc/mothur_unique_seqs/mothur_unique_seqs/1.36.1.0
8	Count.seqs	toolshed.g2.bx.psu.edu/repos/iuc/mothur_count_seqs/mothur_count_seqs/1.36.1.0
9	Summary.seqs	toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_seqs/mothur_summary_seqs/1.36.1.0
10	Screen.seqs	toolshed.g2.bx.psu.edu/repos/iuc/mothur_screen_seqs/mothur_screen_seqs/1.36.1.0
11	Align.seqs	toolshed.g2.bx.psu.edu/repos/iuc/mothur_align_seqs/mothur_align_seqs/1.36.1.0
12	Summary.seqs	toolshed.g2.bx.psu.edu/repos/iuc/mothur_summary_seqs/mothur_summary_seqs/1.36.1.0
13	Screen.seqs	toolshed.g2.bx.psu.edu/repos/iuc/mothur_screen_seqs/mothur_screen_seqs/1.36.1.0
14	Filter.seqs	toolshed.g2.bx.psu.edu/repos/iuc/mothur_filter_seqs/mothur_filter_seqs/1.36.1.0
15	Pre.cluster	toolshed.g2.bx.psu.edu/repos/iuc/mothur_pre_cluster/mothur_pre_cluster/1.36.1.0
16	Classify.seqs	toolshed.g2.bx.psu.edu/repos/iuc/mothur_classify_seqs/mothur_classify_seqs/1.36.1.0
17	Cluster.split	toolshed.g2.bx.psu.edu/repos/iuc/mothur_cluster_split/mothur_cluster_split/1.36.1.0
18	Make.shared	toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_shared/mothur_make_shared/1.36.1.0
19	Classify.otu	toolshed.g2.bx.psu.edu/repos/iuc/mothur_classify_otu/mothur_classify_otu/1.36.1.0
20	Make.biom	toolshed.g2.bx.psu.edu/repos/iuc/mothur_make_biom/mothur_make_biom/1.36.1.0
21	Visualize with Krona	toolshed.g2.bx.psu.edu/repos/saskia-hiltemann/krona_text/krona-text/1

Outputs

ID	Name	Description	Type
mothur_make_shared_shared	mothur_make_shared_shared	n/a	File

Version History

1.0 (earliest) Created 25th Jun 2024 at 10:54 by Helena Rasche

Added/updated 4 files

Open master dc77ffc

Creators and Submitter

Creators

Not specified

Submitter

Helena Rasche

Discussion Channel

GTN Matrix

Tools

mothur

Krona

License

Creative Commons Attribution 4.0 International

Activity

Views: 361 Downloads: 82

Created: 25th Jun 2024 at 10:54

Last updated: 25th Jun 2024 at 10:54

Amplicon Tutorial 1.0