kmer-profiling-hifi-VGP1/main
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Run on GalaxyEvaluation of Pacbio Hifi Reads and genome profiling. Create Meryl Database used for the estimation of assembly parameters and quality control with Merqury. Part of the VGP pipeline.
Steps
| ID | Name | Description |
|---|---|---|
| 5 | Compose text parameter value | toolshed.g2.bx.psu.edu/repos/iuc/compose_text_param/compose_text_param/0.1.1 |
| 6 | Compose text parameter value | toolshed.g2.bx.psu.edu/repos/iuc/compose_text_param/compose_text_param/0.1.1 |
| 7 | Test if collection has only one item or is empty | n/a |
| 8 | Meryl | toolshed.g2.bx.psu.edu/repos/iuc/meryl_count_kmers/meryl_count_kmers/1.3+galaxy7 |
| 9 | Compose text parameter value | toolshed.g2.bx.psu.edu/repos/iuc/compose_text_param/compose_text_param/0.1.1 |
| 10 | Mash evaluation | n/a |
| 11 | Meryl | toolshed.g2.bx.psu.edu/repos/iuc/meryl_groups_kmers/meryl_groups_kmers/1.3+galaxy7 |
| 12 | Meryl | toolshed.g2.bx.psu.edu/repos/iuc/meryl_histogram_kmers/meryl_histogram_kmers/1.3+galaxy7 |
| 13 | GenomeScope | toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0.1+galaxy0 |
| 14 | Parse kcov | n/a |
| 15 | Image Montage | toolshed.g2.bx.psu.edu/repos/bgruening/imagemagick_image_montage/imagemagick_image_montage/7.1.2-2+galaxy0 |
| 16 | Parse Estimated Genome Size | n/a |
| 17 | Homozygous Read Coverage | param_value_from_file |
| 18 | Estimated Genome Size | param_value_from_file |
| 19 | Parse parameter value | param_value_from_file |
| 20 | Rdeval Stats | toolshed.g2.bx.psu.edu/repos/richard-burhans/rdeval/rdeval/0.0.7+galaxy5 |
| 21 | rdeval report | toolshed.g2.bx.psu.edu/repos/richard-burhans/rdeval/rdeval_report/0.0.7+galaxy5 |
Version History
v0.1.1 (earliest) Created 31st Oct 2023 at 03:01 by WorkflowHub Bot
Updated to v0.1.1
Frozen
v0.1.1270fb18
Creators and Submitter
Views: 12241 Downloads: 9654 Runs: 3
Created: 31st Oct 2023 at 03:01
Last updated: 31st Oct 2025 at 03:01
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