Metagenomics assembly tutorial workflow
1.0

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Workflow Type: Galaxy

Associated Tutorial

This workflows is part of the tutorial Metagenomics assembly tutorial workflow, available in the GTN

Thanks to...

Tutorial Author(s): Polina Polunina, Bérénice Batut

Funder(s): Gallantries: Bridging Training Communities in Life Science, Environment and Health

gtn star logo followed by the word workflows

SEEK ID: https://dev.workflowhub.eu/workflows/1103?version=1

Inputs

ID Name Description Type
Input Dataset Collection #main/Input Dataset Collection n/a
  • array containing
    • File

Steps

ID Name Description
1 metaSPAdes toolshed.g2.bx.psu.edu/repos/nml/metaspades/metaspades/3.15.4+galaxy2
2 MEGAHIT toolshed.g2.bx.psu.edu/repos/iuc/megahit/megahit/1.2.9+galaxy0
3 Bowtie2 toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.5.0+galaxy0
4 megahit contig2fastg toolshed.g2.bx.psu.edu/repos/iuc/megahit_contig2fastg/megahit_contig2fastg/1.1.3+galaxy1
5 Quast toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.2.0+galaxy0
6 Bandage Image toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_image/0.8.1+galaxy4
7 Bandage Info toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_info/0.8.1+galaxy2
8 Column join toolshed.g2.bx.psu.edu/repos/iuc/collection_column_join/collection_column_join/0.0.3

Outputs

ID Name Description Type
_anonymous_output_10 #main/_anonymous_output_10 n/a
  • File
_anonymous_output_11 #main/_anonymous_output_11 n/a
  • File
_anonymous_output_12 #main/_anonymous_output_12 n/a
  • File
_anonymous_output_13 #main/_anonymous_output_13 n/a
  • File
_anonymous_output_14 #main/_anonymous_output_14 n/a
  • File
_anonymous_output_2 #main/_anonymous_output_2 n/a
  • File
_anonymous_output_3 #main/_anonymous_output_3 n/a
  • File
_anonymous_output_4 #main/_anonymous_output_4 n/a
  • File
_anonymous_output_5 #main/_anonymous_output_5 n/a
  • File
_anonymous_output_6 #main/_anonymous_output_6 n/a
  • File
_anonymous_output_7 #main/_anonymous_output_7 n/a
  • File
_anonymous_output_8 #main/_anonymous_output_8 n/a
  • File
_anonymous_output_9 #main/_anonymous_output_9 n/a
  • File
metaSPAdes on input dataset(s): Assembly graph #main/metaSPAdes on input dataset(s): Assembly graph n/a
  • File
metaSPAdes on input dataset(s): Assembly graph with scaffolds #main/metaSPAdes on input dataset(s): Assembly graph with scaffolds n/a
  • File
metaSPAdes on input dataset(s): Contigs #main/metaSPAdes on input dataset(s): Contigs n/a
  • File
metaSPAdes on input dataset(s): Scaffolds #main/metaSPAdes on input dataset(s): Scaffolds n/a
  • File

Version History

1.0 (earliest) Created 25th Jun 2024 at 10:58 by Helena Rasche

Added/updated 4 files


Open master 6ecaafe
help Creators and Submitter
Creators
Not specified
Submitter
Discussion Channel
GTN Matrix
Tools
metaspades
MEGAHIT
Bowtie 2
QUAST
Bandage
License
Creative Commons Attribution 4.0 International
Activity

Views: 260   Downloads: 74

Created: 25th Jun 2024 at 10:57

Last updated: 25th Jun 2024 at 10:58

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