Genome Assembly using PacBio data
Version 1

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Workflow Type: Galaxy

Galaxy workflow

SEEK ID: https://dev.workflowhub.eu/workflows/1006?version=1

Inputs

ID Name Description Type
PacBio reads #main/PacBio reads PacBio reads in fastq format
  • File
Reference genome #main/Reference genome Reference genome from JGI
  • File

Steps

ID Name Description
2 Flye toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.9+galaxy0
3 Fasta Statistics toolshed.g2.bx.psu.edu/repos/iuc/fasta_stats/fasta-stats/2.0
4 Busco toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.2.2+galaxy2
5 Fasta Statistics toolshed.g2.bx.psu.edu/repos/iuc/fasta_stats/fasta-stats/2.0
6 Quast toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.0.2+galaxy3
7 Busco toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.2.2+galaxy2

Outputs

ID Name Description Type
Flye on input dataset(s): assembly graph #main/Flye on input dataset(s): assembly graph n/a
  • File
Flye on input dataset(s): assembly info #main/Flye on input dataset(s): assembly info n/a
  • File
Flye on input dataset(s): consensus #main/Flye on input dataset(s): consensus n/a
  • File
Flye on input dataset(s): graphical fragment assembly #main/Flye on input dataset(s): graphical fragment assembly n/a
  • File
Quast on input dataset(s): HTML report #main/Quast on input dataset(s): HTML report n/a
  • File
_anonymous_output_1 #main/_anonymous_output_1 n/a
  • File
_anonymous_output_2 #main/_anonymous_output_2 n/a
  • File

Version History

4 (earliest) Created 22nd Apr 2024 at 11:18 by Helena Rasche

Added/updated 3 files


Open master b8fb971
help Creators and Submitter
Creators
  • Erwan Corre
  • Stéphanie Robin
  • Anthony Bretaudeau
  • Alexandre Cormier
Submitter
Tools
Flye
BUSCO
QUAST
License
GNU General Public License v3.0 or later
Activity

Views: 22

Created: 22nd Apr 2024 at 11:18

Last updated: 22nd Apr 2024 at 11:18

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