Plot-Nx-Size/main
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Generate Nx and size plots for multiple assemblies to compare the evolution of assembly quality through the scaffolding process. Inputs are the fasta files for each assembly to compare.
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| Collection of genomes to plot | #main/Collection of genomes to plot | Name the items inside the collection with the names you want to appear on the plot |
|
Steps
| ID | Name | Description |
|---|---|---|
| 1 | gfastats | toolshed.g2.bx.psu.edu/repos/bgruening/gfastats/gfastats/1.3.11+galaxy0 |
| 2 | Sort | sort1 |
| 3 | Text reformatting | toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool/9.5+galaxy0 |
| 4 | Datamash | toolshed.g2.bx.psu.edu/repos/iuc/datamash_ops/datamash_ops/1.8+galaxy0 |
| 5 | Add column | toolshed.g2.bx.psu.edu/repos/devteam/add_value/addValue/1.0.1 |
| 6 | Parse parameter value | param_value_from_file |
| 7 | Compose text parameter value | toolshed.g2.bx.psu.edu/repos/iuc/compose_text_param/compose_text_param/0.1.1 |
| 8 | Compute | toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/2.1 |
| 9 | Add input name as column | toolshed.g2.bx.psu.edu/repos/mvdbeek/add_input_name_as_column/addName/0.2.0 |
| 10 | Collapse Collection | toolshed.g2.bx.psu.edu/repos/nml/collapse_collections/collapse_dataset/5.1.0 |
| 11 | Cut | Cut1 |
| 12 | Cut | Cut1 |
| 13 | Nx Plot | toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_point/ggplot2_point/3.4.0+galaxy1 |
| 14 | Size Plot | toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_point/ggplot2_point/3.4.0+galaxy1 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| Nx Plot | #main/Nx Plot | n/a |
|
| Size Plot | #main/Size Plot | n/a |
|
| gfastats data for plotting | #main/gfastats data for plotting | n/a |
|
Version History
v0.1.5 (latest) Created 17th May 2025 at 03:02 by WorkflowHub Bot
Updated to v0.1.5
Frozen
v0.1.5c1f9d06
v0.1 (earliest) Created 24th Jun 2024 at 03:01 by WorkflowHub Bot
Updated to v0.1
Frozen
v0.1
6abb355
Creators and Submitter
Activity
Views: 2933 Downloads: 672 Runs: 0
Created: 24th Jun 2024 at 03:01
Last updated: 26th Mar 2025 at 10:06
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