Workflow Type: Galaxy

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

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+galaxy2
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+galaxy2
14 Genomescope on maternal haplotype toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0+galaxy2

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

v0.1.3 (latest) Created 24th Nov 2023 at 03:02 by WorkflowHub Bot

Updated to v0.1.3


Frozen v0.1.3 42946fd

v0.1.2 Created 10th Nov 2023 at 03:01 by WorkflowHub Bot

Updated to v0.1.2


Frozen v0.1.2 8ede5c5

v0.1.1 (earliest) Created 31st Oct 2023 at 03:01 by WorkflowHub Bot

Updated to v0.1.1


Frozen v0.1.1 e6b9882
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VGP, Galaxy

Submitter
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Views: 2294   Downloads: 296

Created: 31st Oct 2023 at 03:01

Last updated: 24th Nov 2023 at 03:02

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