| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/iuc/scanpy_filter/scanpy_filter/1.4.4.post1+galaxy0 |
| toolshed.g2.bx.psu.edu/repos/iuc/scanpy_filter/scanpy_filter/1.4.4+galaxy0 (this tool) |
| toolshed.g2.bx.psu.edu/repos/iuc/scanpy_filter/scanpy_filter/1.4+galaxy0 |
| scanpy_filter |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| scanpy | 1.4.4 | 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 |
method|filter|min_counts: 3 method|filter|filter: min_counts adata: krumsiek11.h5ad method|method: pp.filter_cells |
attributes: name |
krumsiek11.h5ad name |
| Test-2 |
method|filter|max_genes: 100 method|filter|filter: max_genes adata: krumsiek11.h5ad method|method: pp.filter_cells |
attributes: name |
krumsiek11.h5ad name |
| Test-3 |
method|filter|min_counts: 3 method|filter|filter: min_counts adata: krumsiek11.h5ad method|method: pp.filter_genes |
attributes: name |
krumsiek11.h5ad name |
| Test-4 |
method|min_fold_change: 3 method|method: tl.filter_rank_genes_groups adata: tl.rank_genes_groups.krumsiek11.h5ad method|log: False method|max_out_group_fraction: 0.5 method|key_added: rank_genes_groups_filtered method|use_raw: False method|key: rank_genes_groups method|min_in_group_fraction: 0.25 |
attributes: name |
tl.rank_genes_groups.krumsiek11.h5ad name |
| Test-5 |
method|flavor|max_mean: 3 method|method: pp.highly_variable_genes method|flavor|min_disp: 0.5 method|n_bins: 20 method|flavor|min_mean: 0.0125 method|flavor|flavor: seurat adata: blobs.h5ad method|subset: False |
attributes: name |
blobs.h5ad name |
| Test-6 |
method|flavor|n_top_genes: 2 method|n_bins: 20 adata: krumsiek11.h5ad method|flavor|flavor: cell_ranger method|method: pp.highly_variable_genes |
attributes: name |
krumsiek11.h5ad name |
| Test-7 |
method|random_state: 0 method|type|fraction: 0.5 method|type|type: fraction adata: krumsiek11.h5ad method|method: pp.subsample |
attributes: name |
krumsiek11.h5ad name |
| Test-8 |
method|random_state: 0 method|type|n_obs: 10 method|type|type: n_obs adata: krumsiek11.h5ad method|method: pp.subsample |
attributes: name |
krumsiek11.h5ad name |
| Test-9 |
method|random_state: 0 method|total_counts: 20000 adata: random-randint.h5ad method|replace: False method|method: pp.downsample_counts |
attributes: name |
random-randint.h5ad name |