Racon polish with long reads, x4 - upgraded
2.0

Workflow Type: Galaxy

Associated Tutorial

This workflows is part of the tutorial Large genome assembly and polishing, available in the GTN

Features

Thanks to...

Workflow Author(s): Anna Syme

Tutorial Author(s): Anna Syme

gtn star logo followed by the word workflows

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 (earliest) Created 2nd Jun 2025 at 11:00 by GTN Bot

Added/updated 4 files


Open master 0f6c8aa
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Views: 42   Downloads: 4   Runs: 0

Created: 2nd Jun 2025 at 11:00

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