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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Workflow Components
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 |
|
Oases_optimiser |
toolshed.g2.bx.psu.edu/repos/drosofff/msp_oases/oasesoptimiserv/1.1.4 |
|
NCBI BLAST+ blastn |
toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.06 |
|
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 |
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Version 1 (earliest)
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