| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/scanpy_normalize/scanpy_normalize/1.4.4.post1+galaxy3 |
| toolshed.g2.bx.psu.edu/repos/iuc/scanpy_normalize/scanpy_normalize/1.4.4.post1+galaxy2 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/scanpy_normalize/scanpy_normalize/1.4.4.post1+galaxy1 |
| toolshed.g2.bx.psu.edu/repos/iuc/scanpy_normalize/scanpy_normalize/1.4.4.post1+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/scanpy_normalize/scanpy_normalize/1.4.4+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/scanpy_normalize/scanpy_normalize/1.4+galaxy0 |
| scanpy_normalize |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| scanpy | 1.4.4.post1 | package |
| loompy | 2.0.17 | package |
| h5py | 2.9.0 | package |
| leidenalg | 0.7.0 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
advanced_common|show_log: True method|exclude_highly_expressed|exclude_highly_expressed: False method|method: pp.normalize_total method|key_added: n_counts method|layer_norm: None method|layers: all adata: krumsiek11.h5ad |
attributes: name attributes: name |
krumsiek11.h5ad name |
| Test-2 |
adata: random-randint.h5ad advanced_common|show_log: True method|log: True method|n_top_genes: 1000 method|method: pp.recipe_zheng17 |
attributes: name attributes: name |
random-randint.h5ad name |
| Test-3 |
method|random_state: 0 advanced_common|show_log: True method|mean_threshold: 0.01 method|log: True method|cv_threshold: 2.0 method|method: pp.recipe_weinreb17 method|svd_solver: randomized method|n_pcs: 50 adata: paul15_subsample.h5ad |
attributes: name attributes: name |
paul15_subsample.h5ad name |
| Test-4 |
advanced_common|show_log: True method|log: True adata: pp.recipe_zheng17.random-randint.h5ad method|method: pp.recipe_seurat |
attributes: name attributes: name |
pp.recipe_zheng17.random-randint.h5ad name |