Metavisitor: Workflow for Use Case 1-4

Created: 2016-05-13 08:15:07 Last updated: 2017-04-17 15:46:15

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Metavisitor, a suite of Galaxy tools for simple and rapid detection and discovery of viruses in deep sequence data
Readthedoc
Mississippi Galaxy server

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Inputs (2)

Name	Description
Input Dataset Collection
viral nucleotide BLAST database (NCBI 19-10-2015)

Steps (10)

Name	Tool	Description
Input dataset collection	None
Input dataset	None
Clip adapter	toolshed.g2.bx.psu.edu/repos/drosofff/yac_clipper/yac/1.3.6
Concatenate multiple datasets	toolshed.g2.bx.psu.edu/repos/mvdbeek/concatenate_multiple_datasets/cat_multiple/0.2
fasta - tabular	toolshed.g2.bx.psu.edu/repos/drosofff/msp_fasta_tabular_converter/fasta_tabular_converter/1.1.0
fasta - tabular	toolshed.g2.bx.psu.edu/repos/drosofff/msp_fasta_tabular_converter/fasta_tabular_converter/1.1.0
sRbowtie	toolshed.g2.bx.psu.edu/repos/drosofff/msp_sr_bowtie/bowtieForSmallRNA/1.1.2.1
Oases_optimiser	toolshed.g2.bx.psu.edu/repos/drosofff/msp_oases/oasesoptimiserv/1.2.1
NCBI BLAST+ blastn	toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.08
Parse blast output and compile hits	toolshed.g2.bx.psu.edu/repos/drosofff/msp_blastparser_and_hits/BlastParser_and_hits/2.4.3

Outputs (13)

Name	Type
output	fasta
out_file1	input
output	fasta
output	fasta
output	tabular
aligned	fasta
unaligned	fasta
transcripts	fasta
output1	tabular
tabularOutput	tabular
fastaOutput	fasta
al_sequences	fasta
un_sequences	fasta

Information Workflow Type

Galaxy

Information Uploader

Christophe Antoniewski

Information License

All versions of this Workflow are not licensed.

Information Version 2 (latest) (of 2)

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Information Statistics

1096 viewings

550 downloads

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Citations (0)

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Version History

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Metavisitor: Workflow for Use Case 1-4

Created by Christophe Antoniewski on Friday 13 May 2016 08:15:06 (UTC)

Last edited by Christophe Antoniewski on Friday 13 May 2016 08:35:06 (UTC)
Metavisitor: Workflow for Use Case 1-4

Created by Christophe Antoniewski on Monday 17 April 2017 15:45:07 (UTC)

Last edited by Christophe Antoniewski on Monday 17 April 2017 15:46:15 (UTC)

Revision comment:

update msp_oases version 1.2.1

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