Workflow for Identifying MF from ITS2 sequencing using LotuS2 - tutorial example run'
1.0

Workflow Type: Galaxy

Workflow for running LotuS2 tool on fungal ITS paired-end sequencing data, to identify the fungi present in the samples

Associated Tutorial

Workflow Author(s): Society for the Protection of Underground Networks, Sujai Kumar, Bethan Manley

Tutorial Author(s): Sujai Kumar

Tutorial Contributor(s): Bethan Manley

Funder(s): Society for the Protection of Underground Networks

SEEK ID: https://dev.workflowhub.eu/workflows/1366?version=1

ID	Name	Description	Type
Input Dataset Collection	#main/Input Dataset Collection	List of paired fastq files needed to run LotuS2. These files MUST match the files in the Mapping File	array containing File
Mapping tsv	#main/Mapping tsv	Mapping file needed by LotuS2 to link sample metadata to a pair of fastq files	File
sdm Options txt	#main/sdm Options txt	SDM (sequence demultiplexer tool) options needed for fungal ITS illumina paired-end sequencing	File

ID	Name	Description
3	LotuS2	LotuS2 creates a large output folder which is zipped up and provided as one of the outputs. Some of the individual files within this output folder are also exposed as outputs by the Galaxy LotuS2 tool so that they can be used in subsequent downstream analyses. toolshed.g2.bx.psu.edu/repos/earlhaminst/lotus2/lotus2/2.32+galaxy0

ID	Name	Description	Type
Complete Output Zip	#main/Complete Output Zip	n/a	File
OTU Phylogenetic Tree	#main/OTU Phylogenetic Tree	n/a	File
OTU Table	#main/OTU Table	n/a	File
OTU fasta	#main/OTU fasta	n/a	File

Added/updated 4 files

Open master 6823e28

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Created: 7th Oct 2024 at 14:07

Last updated: 7th Oct 2024 at 14:07