Workflow Type: Galaxy
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Generate mitochondrial assembly based on PacBio HiFi reads. Part of the VGP suite, it can be run at any time independently of the other workflows. This workflow uses MitoHiFi and a mitochondrial reference to assemble the mitochondrial genome from PacBio reads. You do not need to provide the reference yourself, only the Latin name of the species.
Inputs
ID | Name | Description | Type |
---|---|---|---|
Assembly Name | Assembly Name | For Workflow report. |
|
Collection of Pacbio Data | Collection of Pacbio Data | n/a |
|
Email adress | Email adress | Required for NCBI database query |
|
Species name (latin name) | Species name (latin name) | Latin name of the species. E.g. Homo Sapiens |
|
Steps
ID | Name | Description |
---|---|---|
4 | Compose text parameter value | toolshed.g2.bx.psu.edu/repos/iuc/compose_text_param/compose_text_param/0.1.1 |
5 | Compose text parameter value | toolshed.g2.bx.psu.edu/repos/iuc/compose_text_param/compose_text_param/0.1.1 |
6 | MitoHiFi | toolshed.g2.bx.psu.edu/repos/bgruening/mitohifi/mitohifi/3.2.3+galaxy0 |
7 | MitoHiFi | toolshed.g2.bx.psu.edu/repos/bgruening/mitohifi/mitohifi/3.2.3+galaxy0 |
8 | Compress file(s) | toolshed.g2.bx.psu.edu/repos/iuc/compress_file/compress_file/0.1.0 |
Outputs
ID | Name | Description | Type |
---|---|---|---|
Species Name for report | Species Name for report | n/a |
|
Assembly Name for report | Assembly Name for report | n/a |
|
Mitogenome: Contigs Statistics | Mitogenome: Contigs Statistics | n/a |
|
Mitogenome coverage: Image | Mitogenome coverage: Image | n/a |
|
Mitogenome annotation: Image | Mitogenome annotation: Image | n/a |
|
Mitogenome annotation: GenBank | Mitogenome annotation: GenBank | n/a |
|
Compressed Mitogenome | Compressed Mitogenome | n/a |
|
Version History
v0.2.1 (latest) Created 29th May 2025 at 03:01 by WorkflowHub Bot
Updated to v0.2.1
Frozen
v0.2.1
87ca0c5
v0.1 (earliest) Created 8th Feb 2024 at 03:01 by WorkflowHub Bot
Updated to v0.1
Frozen
v0.1
97cce79

Creators
Not specifiedAdditional credit
VGP, Galaxy
Submitter
Activity
Views: 3197 Downloads: 415 Runs: 1
Created: 8th Feb 2024 at 03:01
Last updated: 29th May 2025 at 03:01

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