kmer-profiling-hifi-trio-VGP2/main
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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 | K-mer length | n/a |
|
| Maternal reads | Maternal reads | Collection of Illumina reads for the mother of the Individual sequenced with Pacbio Hifi. |
|
| Pacbio Hifi reads | Pacbio Hifi reads | n/a |
|
| Paternal reads | Paternal reads | Collection of Illumina reads for the father of the Individual sequenced with Pacbio Hifi. |
|
| Ploidy | Ploidy | n/a |
|
Steps
| ID | Name | Description |
|---|---|---|
| 5 | Pick parameter value | toolshed.g2.bx.psu.edu/repos/iuc/pick_value/pick_value/0.2.0 |
| 6 | Meryl | toolshed.g2.bx.psu.edu/repos/iuc/meryl_count_kmers/meryl_count_kmers/1.3+galaxy7 |
| 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 | Meryl | toolshed.g2.bx.psu.edu/repos/iuc/meryl_groups_kmers/meryl_groups_kmers/1.3+galaxy7 |
| 10 | Meryl | toolshed.g2.bx.psu.edu/repos/iuc/meryl_groups_kmers/meryl_groups_kmers/1.3+galaxy7 |
| 11 | GenomeScope | toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0.1+galaxy0 |
| 12 | Meryl | toolshed.g2.bx.psu.edu/repos/iuc/meryl_histogram_kmers/meryl_histogram_kmers/1.3+galaxy7 |
| 13 | Meryl | toolshed.g2.bx.psu.edu/repos/iuc/meryl_histogram_kmers/meryl_histogram_kmers/1.3+galaxy7 |
| 14 | Genomescope on paternal haplotype | toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0.1+galaxy0 |
| 15 | Genomescope on maternal haplotype | toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0.1+galaxy0 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| Meryl database : maternal | Meryl database : maternal | n/a |
|
| Meryl database : Child | Meryl database : Child | n/a |
|
| Meryl database : paternal | Meryl database : paternal | n/a |
|
| GenomeScope transformed linear plot (child) | GenomeScope transformed linear plot (child) | n/a |
|
| GenomeScope transformed log plot (child) | GenomeScope transformed log plot (child) | n/a |
|
| GenomeScope summary (child) | GenomeScope summary (child) | n/a |
|
| GenomeScope linear plot (child) | GenomeScope linear plot (child) | n/a |
|
| GenomeScope log plot (child) | GenomeScope log plot (child) | n/a |
|
| GenomeScope Model Parameters (child) | GenomeScope Model Parameters (child) | n/a |
|
| GenomeScope log plot (paternal) | GenomeScope log plot (paternal) | n/a |
|
| GenomeScope transformed linear plot (paternal) | GenomeScope transformed linear plot (paternal) | n/a |
|
| GenomeScope linear plot (paternal) | GenomeScope linear plot (paternal) | n/a |
|
| GenomeScope transformed log plot (paternal) | GenomeScope transformed log plot (paternal) | n/a |
|
| GenomeScope linear plot (maternal) | GenomeScope linear plot (maternal) | n/a |
|
| GenomeScope log plot (maternal) | GenomeScope log plot (maternal) | n/a |
|
| GenomeScope transformed log plot (maternal) | GenomeScope transformed log plot (maternal) | n/a |
|
| GenomeScope transformed linear plot (maternal) | GenomeScope transformed linear plot (maternal) | n/a |
|
Version History
v0.1.5 (latest) Created 12th Dec 2024 at 03:02 by WorkflowHub Bot
Updated to v0.1.5
Frozen
v0.1.5d31ecc1
v0.1.1 (earliest) Created 31st Oct 2023 at 03:01 by WorkflowHub Bot
Updated to v0.1.1
Frozen
v0.1.1
e6b9882
Creators and Submitter
Tool
Activity
Views: 4406 Downloads: 667 Runs: 0
Created: 31st Oct 2023 at 03:01
Last updated: 12th Dec 2024 at 03:02
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