kmer-profiling-hifi-trio-VGP2/main
v0.1.4

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Workflow Type: Galaxy

Create Meryl Database used for the estimation of assembly parameters and quality control with Merqury. Part of the VGP pipeline.

SEEK ID: https://workflowhub.eu/workflows/1135?version=1

Inputs

ID Name Description Type
K-mer length #main/K-mer length n/a
  • int
Maternal reads #main/Maternal reads Collection of Illumina reads for the mother of the Individual sequenced with Pacbio Hifi.
  • array containing
    • File
Pacbio Hifi reads #main/Pacbio Hifi reads n/a
  • array containing
    • File
Paternal reads #main/Paternal reads Collection of Illumina reads for the father of the Individual sequenced with Pacbio Hifi.
  • array containing
    • File
Ploidy #main/Ploidy n/a
  • int

Steps

ID Name Description
5 Meryl toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
6 Meryl toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
7 Meryl toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
8 Meryl toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
9 GenomeScope toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0.1+galaxy0
10 Meryl toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
11 Meryl toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
12 Meryl toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
13 Genomescope on paternal haplotype toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0.1+galaxy0
14 Genomescope on maternal haplotype toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0.1+galaxy0

Outputs

ID Name Description Type
GenomeScope Model Parameters (child) #main/GenomeScope Model Parameters (child) n/a
  • File
GenomeScope linear plot (child) #main/GenomeScope linear plot (child) n/a
  • File
GenomeScope linear plot (maternal) #main/GenomeScope linear plot (maternal) n/a
  • File
GenomeScope linear plot (paternal) #main/GenomeScope linear plot (paternal) n/a
  • File
GenomeScope log plot (child) #main/GenomeScope log plot (child) n/a
  • File
GenomeScope log plot (maternal) #main/GenomeScope log plot (maternal) n/a
  • File
GenomeScope log plot (paternal) #main/GenomeScope log plot (paternal) n/a
  • File
GenomeScope summary (child) #main/GenomeScope summary (child) n/a
  • File
GenomeScope transformed linear plot (child) #main/GenomeScope transformed linear plot (child) n/a
  • File
GenomeScope transformed linear plot (maternal) #main/GenomeScope transformed linear plot (maternal) n/a
  • File
GenomeScope transformed linear plot (paternal) #main/GenomeScope transformed linear plot (paternal) n/a
  • File
GenomeScope transformed log plot (child) #main/GenomeScope transformed log plot (child) n/a
  • File
GenomeScope transformed log plot (maternal) #main/GenomeScope transformed log plot (maternal) n/a
  • File
GenomeScope transformed log plot (paternal) #main/GenomeScope transformed log plot (paternal) n/a
  • File
Meryl database : Child #main/Meryl database : Child n/a
  • File
Meryl database : maternal #main/Meryl database : maternal n/a
  • File
Meryl database : paternal #main/Meryl database : paternal n/a
  • File

Version History

v0.1.4 (earliest) Created 7th Sep 2024 at 03:03 by WorkflowHub Bot

Updated to v0.1.4


Frozen v0.1.4 0d60097
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Additional credit

VGP, Galaxy

Submitter
License
Creative Commons Attribution 4.0 International
Activity

Views: 171   Downloads: 28   Runs: 0

Created: 7th Sep 2024 at 03:03

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