leiden
Introduction
cluster cells into subgroups by leident
Script
Input
Task name | Attribute name | Type | Description |
---|---|---|---|
* main | project_name | String | project name |
* main | anndata | File | Input object format:anndata |
main.leiden | use_weights | Boolean | If True, edge weights from the graph are used in the computation (placing more emphasis on stronger edges). |
main.leiden | resolution | Float | A parameter value controlling the coarseness of the clustering. Higher values lead to more clusters. Set to None if overriding partition_type to one that doesn’t accept a resolution_parameter. |
main.leiden | n_iterations | Float | How many iterations of the Leiden clustering algorithm to perform. Positive values above 2 define the total number of iterations to perform, -1 has the algorithm run until it reaches its optimal clustering. |
main.leiden | memory | String | Number of memory running tasksnotice:1. The value range is 0.25-32 cores, in addition, 48 cores and 64 cores can be selected, and the CPU must be an integer multiple of 0.25 cores; 2. The memory value range is 1GB-512GB, and the memory must be an integer multiple of 1GB. 3. The CPU / memory ratio must be between 1:2 and 1:8 |
main.leiden | docker | String | -- |
main.leiden | directed | Boolean | Whether to treat the graph as directed or undirected. |
main.leiden | cpu | String | Number of CPU running tasks.notice:1. The value range is 0.25-32 cores, in addition, 48 cores and 64 cores can be selected, and the CPU must be an integer multiple of 0.25 cores; 2. The memory value range is 1GB-512GB, and the memory must be an integer multiple of 1GB. 3. The CPU / memory ratio must be between 1:2 and 1:8 |
Output
Task name | Attribute name | Type | Description |
---|---|---|---|
main | clustfile | File | Return the output file to the column name of the corresponding table by this.xxx |
main | h5adfile | File | Return the output file to the column name of the corresponding table by this.xxx |