Intro to Genome Assembly

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Workflow Type: Galaxy

tutorial

Associated Tutorial

This workflows is part of the tutorial Intro to Genome Assembly, available in the GTN

Features

Thanks to...

Tutorial Author(s): Simon Gladman

gtn star logo followed by the word workflows

SEEK ID: https://dev.workflowhub.eu/workflows/1192?version=2

Inputs

ID Name Description Type
mutant_R1.fastq #main/mutant_R1.fastq n/a
  • File
mutant_R2.fastq #main/mutant_R2.fastq n/a
  • File
wildtype.fna #main/wildtype.fna n/a
  • File

Steps

ID Name Description
3 FastQC toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72+galaxy1
4 FastQC toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.72+galaxy1
5 FASTQ interlacer toolshed.g2.bx.psu.edu/repos/devteam/fastq_paired_end_interlacer/fastq_paired_end_interlacer/1.2.0.1+galaxy0
6 MultiQC toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.7
7 velveth toolshed.g2.bx.psu.edu/repos/devteam/velvet/velveth/1.2.10.1
8 velvetg toolshed.g2.bx.psu.edu/repos/devteam/velvet/velvetg/1.2.10.1
9 Quast toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.0.2+galaxy0

Outputs

ID Name Description Type
fastqc_html #main/fastqc_html n/a
  • File
fastqc_txt #main/fastqc_txt n/a
  • File
multiqc_report #main/multiqc_report n/a
  • File
multiqc_stats #main/multiqc_stats n/a
  • File
output_pairs #main/output_pairs n/a
  • File
output_singles #main/output_singles n/a
  • File
quast_report_html #main/quast_report_html n/a
  • File
quast_report_pdf #main/quast_report_pdf n/a
  • File
velvet_contigs #main/velvet_contigs n/a
  • File
velvet_stats #main/velvet_stats n/a
  • File
velveth_out #main/velveth_out n/a
  • File

Version History

5.0 (latest) Created 16th Jul 2024 at 14:09 by Helena Rasche

Added/updated 4 files


Open master 62dd91f

6.0 (earliest) Created 25th Jun 2024 at 11:08 by Helena Rasche

Added/updated 4 files


Frozen 6.0 b071117
help Creators and Submitter
Creators
Not specified
Submitter
Discussion Channel
GTN Matrix
Tools
FastQC
MultiQC
QUAST
License
Creative Commons Attribution 4.0 International
Activity

Views: 199   Downloads: 79

Created: 25th Jun 2024 at 11:08

Last updated: 25th Jun 2024 at 11:08

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Total size: 106 KB
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