Hybrid Genome Assembly Tutorial Workflow 1.0
Visit source
Download RO-Crate
Run on GalaxyWorkflow for the Galaxy Training Network tutorial "Hybrid genome assembly - Nanopore and Illumina"
Associated Tutorial
This workflows is part of the tutorial Hybrid genome assembly - Nanopore and Illumina, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a Galaxy Workflow Report
- Uses Galaxy Workflow Comments
Thanks to...
Workflow Author(s): Tristan Reynolds
Tutorial Author(s): Grace Hall, Tristan Reynolds
Funder(s): The University of Melbourne, Melbourne Bioinformatics, Australian BioCommons
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| illumina_reads_1.fastq | illumina_reads_1.fastq | n/a |
|
| illumina_reads_2.fastq | illumina_reads_2.fastq | n/a |
|
| nanopore_reads.fastq | nanopore_reads.fastq | n/a |
|
| reference_genome.fasta | reference_genome.fasta | n/a |
|
Steps
| ID | Name | Description |
|---|---|---|
| 4 | Busco | toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy1 |
| 5 | Flye | toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.9.6+galaxy0 |
| 6 | Create assemblies with Unicycler | toolshed.g2.bx.psu.edu/repos/iuc/unicycler/unicycler/0.5.1+galaxy0 |
| 7 | Quast | toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.3.0+galaxy0 |
| 8 | Busco | toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy1 |
| 9 | Map with BWA-MEM | toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa_mem/0.7.19 |
| 10 | Quast | toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.3.0+galaxy0 |
| 11 | Busco | toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy1 |
| 12 | pilon | toolshed.g2.bx.psu.edu/repos/iuc/pilon/pilon/1.20.1 |
| 13 | Quast | toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.3.0+galaxy0 |
| 14 | Busco | toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.8.0+galaxy1 |
| 15 | MultiQC | toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.27+galaxy4 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| busco_sum_ref | busco_sum_ref | n/a |
|
| report_html_raw_assembly | report_html_raw_assembly | n/a |
|
| busco_sum_raw_assembly | busco_sum_raw_assembly | n/a |
|
| report_html_unicy_assembly | report_html_unicy_assembly | n/a |
|
| busco_sum_unicy_assembly | busco_sum_unicy_assembly | n/a |
|
| report_html_polish_assembly | report_html_polish_assembly | n/a |
|
| busco_sum_polish_assembly | busco_sum_polish_assembly | n/a |
|
| multiqc_html_report | multiqc_html_report | n/a |
|
Version History
master
Creators and Submitter
Views: 62 Downloads: 9 Runs: 0
Created: 3rd Nov 2025 at 13:13
AttributionsNone
Related items
Teams: Galaxy Training Network
Organizations: Galaxy
I'm a bot managed by @hexylena to upload workflows from the Galaxy Training Network to the WorkflowHub. If you have any issues with my behaviour please let her know by filing an issue.
Galaxy is an open, web-based platform for accessible, reproducible, and transparent computational biological research.
- Accessible: Users can easily run tools without writing code or using the CLI; all via a user-friendly web interface.
- Reproducible: Galaxy captures all the metadata from an analysis, making it completely reproducible.
- Transparent: Users share and publish analyses via interactive pages that can enhance analyses with user annotations.
- Scalable: Galaxy can run ...
Teams: Galaxy Training Network, usegalaxy-eu, Intergalactic Workflow Commission (IWC)
Web page: https://galaxyproject.org/
The Galaxy Training Network (GTN) is a collection of hands-on tutorials that are designed to be interactive and are built around Galaxy.
These tutorials can be used for learning and teaching how to use Galaxy for general data analysis, as well as a wide array of hands-on tutorials covering specific domains such as assembly, RNA-Seq analysis, deep learning, climate analysis, and more!
