Mercurial > repos > ebi-gxa > scmap_index_cell
comparison scmap_index_cell.xml @ 9:0f5e46b0981a draft
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit db21c1973b6c308f967326463121918f25bdea00"
| author | ebi-gxa |
|---|---|
| date | Mon, 27 Jul 2020 06:10:30 -0400 |
| parents | 441df83ffc7c |
| children | 7c3f9606ed0a |
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| 8:441df83ffc7c | 9:0f5e46b0981a |
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| 1 <tool id="scmap_index_cell" name="Scmap index cells" version="@TOOL_VERSION@+galaxy3" profile="@PROFILE@"> | 1 <tool id="scmap_index_cell" name="Scmap index cells" version="@TOOL_VERSION@+galaxy4" profile="@PROFILE@"> |
| 2 <description>creates a cell index for a dataset to enable fast approximate nearest neighbour search</description> | 2 <description>creates a cell index for a dataset to enable fast approximate nearest neighbour search</description> |
| 3 <macros> | 3 <macros> |
| 4 <import>scmap_macros.xml</import> | 4 <import>scmap_macros.xml</import> |
| 5 </macros> | 5 </macros> |
| 6 <expand macro="requirements" /> | 6 <expand macro="requirements" /> |
| 18 #end if | 18 #end if |
| 19 | 19 |
| 20 ]]></command> | 20 ]]></command> |
| 21 <inputs> | 21 <inputs> |
| 22 <param type="data" name="input_single_cell_experiment" label="SingleCellExperiment object" format="rdata" help="File with serialized SingleCellExperiment object as produced by 'scmap select features'" /> | 22 <param type="data" name="input_single_cell_experiment" label="SingleCellExperiment object" format="rdata" help="File with serialized SingleCellExperiment object as produced by 'scmap select features'" /> |
| 23 <param name="n_chunks" type="integer" label="Number of chunks" optional="true" help="Number of chunks into which the expr matrix is split" /> | 23 <param name="n_chunks" type="integer" label="Number of chunks" optional="true" value="0" help="Number of chunks into which the expr matrix is split" /> |
| 24 <param name="n_clusters" type="integer" label="Number of clusters" optional="true" help="Number of clusters per group for k-means clustering" /> | 24 <param name="n_clusters" type="integer" label="Number of clusters" optional="true" value="0" help="Number of clusters per group for k-means clustering" /> |
| 25 <param type="text" name="train_id" label="Dataset ID" help="ID of the training dataset" /> | 25 <param type="text" name="train_id" label="Dataset ID" help="ID of the training dataset" /> |
| 26 <param name="random_seed" type="integer" label="Random seed" value='1' help="scmap-cell contains k-means step which makes it stochastic, i.e. running it multiple times will provide slightly different results. A fixed random seed ensures reproducibility." /> | 26 <param name="random_seed" type="integer" label="Random seed" value='1' help="scmap-cell contains k-means step which makes it stochastic, i.e. running it multiple times will provide slightly different results. A fixed random seed ensures reproducibility." /> |
| 27 </inputs> | 27 </inputs> |
| 28 <outputs> | 28 <outputs> |
| 29 <data name="output_single_cell_experiment" format="rdata" /> | 29 <data name="output_single_cell_experiment" format="rdata" /> |