Metavisitor: Workflow for remapping in Use Cases 1-1,2,3

Created: 2016-05-13 08:22:04 Last updated: 2016-05-13 08:23:12

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

Not currently available.

Inputs (2)

Name	Description
Read fastq files
Nora Virus Genomes

Steps (9)

Name	Tool	Description
Input dataset collection	None
Input dataset collection	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
Concatenate multiple datasets	toolshed.g2.bx.psu.edu/repos/mvdbeek/concatenate_multiple_datasets/cat_multiple/0.2
sRbowtie	toolshed.g2.bx.psu.edu/repos/drosofff/msp_sr_bowtie/bowtieForSmallRNA/1.1.2
Concatenate multiple datasets	toolshed.g2.bx.psu.edu/repos/mvdbeek/concatenate_multiple_datasets/cat_multiple/0.2
Line/Word/Character count	wc_gnu
Generate readmap and histograms from alignment files	toolshed.g2.bx.psu.edu/repos/drosofff/msp_sr_readmap_and_size_histograms/Readmap/1.1.5

Outputs (13)

Name	Type
output	fasta
out_file1	input
out_file1	input
output	tabular
aligned	fasta
unaligned	fasta
out_file1	input
out_file1	tabular
readmap_dataframe	tabular
size_distribution_dataframe	tabular
readmap_PDF	pdf
size_PDF	pdf
combi_PDF	pdf