Workflow 2: Community Profile
1.0

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Workflow Type: Galaxy

Metatranscriptomics analysis using microbiome RNA-seq data (short)

Associated Tutorial

This workflows is part of the tutorial Workflow 2: Community Profile, available in the GTN

Tutorial Author(s): Pratik Jagtap, Subina Mehta, Ray Sajulga, Bérénice Batut, Emma Leith, Praveen Kumar, Saskia Hiltemann, Paul Zierep, Engy Nasr

Workflow Author(s): Bérénice Batut, Pratik Jagtap, Subina Mehta, Ray Sajulga, Emma Leith, Praveen Kumar, Saskia Hiltemann, Paul Zierep

SEEK ID: https://dev.workflowhub.eu/workflows/1088?version=1

ID	Name	Description	Type
QC controlled forward reads	#main/QC controlled forward reads	n/a	File
QC controlled reverse reads	#main/QC controlled reverse reads	n/a	File

ID	Name	Description
2	Taxonomic assignation	toolshed.g2.bx.psu.edu/repos/iuc/metaphlan/metaphlan/4.0.6+galaxy0
3	Cut	Cut1
4	Krona pie chart	toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart/2.7.1+galaxy0
5	Export to GraPhlAn	toolshed.g2.bx.psu.edu/repos/iuc/export2graphlan/export2graphlan/0.20+galaxy0
6	Generation, personalization and annotation of tree	toolshed.g2.bx.psu.edu/repos/iuc/graphlan_annotate/graphlan_annotate/1.0.0.0
7	Visualisation (GraPhlAn)	toolshed.g2.bx.psu.edu/repos/iuc/graphlan/graphlan/1.0.0.0

ID	Name	Description	Type
Export to GraPhlAn on input dataset(s): Annotation	#main/Export to GraPhlAn on input dataset(s): Annotation	n/a	File
Export to GraPhlAn on input dataset(s): Tree	#main/Export to GraPhlAn on input dataset(s): Tree	n/a	File
Generation, personalization and annotation of tree on input dataset(s): Tree in PhyloXML	#main/Generation, personalization and annotation of tree on input dataset(s): Tree in PhyloXML	n/a	File
GraPhlAn on input dataset(s): PNG	#main/GraPhlAn on input dataset(s): PNG	n/a	File
MetaPhlAn on input dataset(s): BIOM file	#main/MetaPhlAn on input dataset(s): BIOM file	n/a	File
MetaPhlAn on input dataset(s): Bowtie2 output	#main/MetaPhlAn on input dataset(s): Bowtie2 output	n/a	File
MetaPhlAn on input dataset(s): Predicted taxon relative abundances	#main/MetaPhlAn on input dataset(s): Predicted taxon relative abundances	n/a	File
MetaPhlAn on input dataset(s): SAM file	#main/MetaPhlAn on input dataset(s): SAM file	n/a	File
_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