Racon polish with long reads, x4 - upgraded

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Workflow Type: Galaxy

Associated Tutorial

This workflows is part of the tutorial Racon polish with long reads, x4 - upgraded, available in the GTN

Features

Thanks to...

Tutorial Author(s): Anna Syme

Workflow Author(s): Anna Syme

gtn star logo followed by the word workflows

SEEK ID: https://dev.workflowhub.eu/workflows/1154?version=1

Inputs

ID Name Description Type
Assembly to be polished Assembly to be polished n/a
  • File
long reads long reads n/a
  • File
minimap setting (for long reads) minimap setting (for long reads) n/a
  • string?

Steps

ID Name Description
3 Minimap2: map long reads to assembly Map raw reads to assembly; output paf toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.26+galaxy0
4 Racon: polish 1 toolshed.g2.bx.psu.edu/repos/bgruening/racon/racon/1.5.0+galaxy1
5 Minimap2: map long reads to polished assembly 1 Map raw reads to assembly; output paf toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.26+galaxy0
6 Racon: polish 2 toolshed.g2.bx.psu.edu/repos/bgruening/racon/racon/1.5.0+galaxy1
7 Minimap2: map long reads to polished assembly 2 Map raw reads to assembly; output paf toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.26+galaxy0
8 Racon: polish 3 toolshed.g2.bx.psu.edu/repos/bgruening/racon/racon/1.5.0+galaxy1
9 Minimap2: map long reads to polished assembly 3 Map raw reads to assembly; output paf toolshed.g2.bx.psu.edu/repos/iuc/minimap2/minimap2/2.26+galaxy0
10 Racon: polish 4 toolshed.g2.bx.psu.edu/repos/bgruening/racon/racon/1.5.0+galaxy1

Outputs

ID Name Description Type
Assembly polished by long reads using Racon Assembly polished by long reads using Racon n/a
  • File

Version History

2.0 (latest) Created 16th Jul 2024 at 14:08 by Helena Rasche

Added/updated 4 files


Open master 6346c7c

4.0 (earliest) Created 25th Jun 2024 at 11:04 by Helena Rasche

Added/updated 4 files


Frozen 4.0 e2b3810
help Creators and Submitter
Creators
Not specified
Submitter
Discussion Channel
GTN Matrix
Tools
Minimap2
Racon
License
GNU General Public License v3.0 or later
Activity

Views: 417   Downloads: 145

Created: 25th Jun 2024 at 11:04

Last updated: 25th Jun 2024 at 11:04

help Attributions

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Total size: 196 KB
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