VGP hybrid scaffolding with Bionano optical maps Version 1
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Run on GalaxyPerforms scaffolding using Bionano Data. Part of VGP assembly pipeline.
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| Bionano Data | n/a | Bionano data in Cmap format. |
|
| Conflict resolution files | n/a | Input a conflict resolution file indicating which NGS and BioNano conflicting contigs to be cut [optional] (-M) |
|
| Estimated genome size - Parameter File | n/a | Parameter file generated in the VGP Hifiasm workflow. Estimated reference genome size (in bp) for computing NGx statistics |
|
| Hifiasm Purged Assembly | n/a | The assembly from "VGP-Hifiasm" workflow. |
|
| Pacbio trimmed reads | n/a | n/a |
|
Steps
| ID | Name | Description |
|---|---|---|
| 10_Quast | n/a | n/a |
| 3_Input parameter | n/a | n/a |
| 6_Parse parameter value | n/a | n/a |
| 7_Bionano Hybrid Scaffold | n/a | n/a |
| 8_Concatenate datasets | n/a | n/a |
| 9_Busco | n/a | n/a |
Version History
Version 1 (earliest) Created 5th Apr 2022 at 23:21 by Cristóbal Gallardo
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Created: 5th Apr 2022 at 23:21
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Vertebrate Genomes ...
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Teams: Vertebrate Genomes Pipelines in Galaxy
Organizations: Galaxy
https://orcid.org/0000-0001-6421-3484
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/
This team and associated Galaxy workflows are maintained by the European Galaxy Team.
Space: Galaxy
Public web page: https://usegalaxy.eu
The Vertebrate Genomes Pipelines in Galaxy are intended to allow a user to generate high-quality near error-free assemblies of species from a user's own data or from the GenomeArk database.
