0: View complete virus identification
Version 1

Workflow Type: Galaxy
Work-in-progress

Non-functional workflow to get a global view of possibilities for plant virus classification.

Steps

ID Name Description
0 fastp toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/0.20.1+galaxy0
1 FLASH merge read toolshed.g2.bx.psu.edu/repos/iuc/flash/flash/1.2.11.4
2 Kraken2 toolshed.g2.bx.psu.edu/repos/iuc/kraken2/kraken2/2.1.1+galaxy0
3 FASTA Merge Files and Filter Unique Sequences toolshed.g2.bx.psu.edu/repos/galaxyp/fasta_merge_files_and_filter_unique_sequences/fasta_merge_files_and_filter_unique_sequences/1.2.0
4 Map with minimap2 toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.17+galaxy2
5 NCBI BLAST+ blastn toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.10.1+galaxy0
6 NCBI BLAST+ tblastx toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_tblastx_wrapper/2.10.1+galaxy0
7 hmmscan toolshed.g2.bx.psu.edu/repos/iuc/hmmer_hmmscan/hmmer_hmmscan/3.3+galaxy1
8 Shovill toolshed.g2.bx.psu.edu/repos/iuc/shovill/shovill/1.1.0+galaxy0
9 Convert Kraken toolshed.g2.bx.psu.edu/repos/devteam/kraken2tax/Kraken2Tax/1.2
10 Map with minimap2 toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.17+galaxy2
11 Krona pie chart toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart/2.7.1+galaxy0
12 BAM filter: keep unmapped reads toolshed.g2.bx.psu.edu/repos/iuc/ngsutils_bam_filter/ngsutils_bam_filter/0.5.9
13 BAMfilter : keep mapped reads toolshed.g2.bx.psu.edu/repos/iuc/ngsutils_bam_filter/ngsutils_bam_filter/0.5.9
14 SamToFastq toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/2.18.2.2
15 Shovill toolshed.g2.bx.psu.edu/repos/iuc/shovill/shovill/1.1.0+galaxy0
16 NCBI BLAST+ blastn toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.10.1+galaxy0

Version History

Version 1 (earliest) Created 4th Feb 2021 at 09:05 by johan Rollin

Added/updated 1 files


Open master 531b52e
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Views: 2217   Downloads: 126

Created: 4th Feb 2021 at 09:05

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Total size: 45.7 KB
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