Plot-Nx-Size/main
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Run on GalaxyGenerate 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+galaxy2 |
| 4 | Datamash | toolshed.g2.bx.psu.edu/repos/iuc/datamash_ops/datamash_ops/1.9+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/3.5.1+galaxy2 |
| 14 | Size Plot | toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_point/ggplot2_point/3.5.1+galaxy2 |
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
v0.1.8 (latest) Created 26th Aug 2025 at 03:02 by WorkflowHub Bot
Updated to v0.1.8
Frozen
v0.1.8b6095c1
v0.1 (earliest) Created 24th Jun 2024 at 03:01 by WorkflowHub Bot
Updated to v0.1
Frozen
v0.1
6abb355
Creators and Submitter
Views: 5746 Downloads: 8828 Runs: 0
Created: 24th Jun 2024 at 03:01
Last updated: 26th Mar 2025 at 10:06
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