scale
Normalize single-cell RNA sequencing data by scaling to unit variance and zero mean. Adjust parameters like zero-centering, clipping, and layer selection for efficient preprocessing.
Instructions
Scale data to unit variance and zero mean
Input Schema
| Name | Required | Description | Default |
|---|---|---|---|
| layer | No | If provided, which element of layers to scale. | |
| mask_obs | No | Boolean mask or string referring to obs column for subsetting observations. | |
| max_value | No | Clip (truncate) to this value after scaling. If None, do not clip. | |
| obsm | No | If provided, which element of obsm to scale. | |
| zero_center | No | If False, omit zero-centering variables to handle sparse input efficiently. |
Input Schema (JSON Schema)
{
"description": "Input schema for the scale preprocessing tool.",
"properties": {
"layer": {
"anyOf": [
{
"type": "string"
},
{
"type": "null"
}
],
"default": null,
"description": "If provided, which element of layers to scale.",
"title": "Layer"
},
"mask_obs": {
"anyOf": [
{
"type": "string"
},
{
"type": "boolean"
},
{
"type": "null"
}
],
"default": null,
"description": "Boolean mask or string referring to obs column for subsetting observations.",
"title": "Mask Obs"
},
"max_value": {
"anyOf": [
{
"type": "number"
},
{
"type": "null"
}
],
"default": null,
"description": "Clip (truncate) to this value after scaling. If None, do not clip.",
"title": "Max Value"
},
"obsm": {
"anyOf": [
{
"type": "string"
},
{
"type": "null"
}
],
"default": null,
"description": "If provided, which element of obsm to scale.",
"title": "Obsm"
},
"zero_center": {
"default": true,
"description": "If False, omit zero-centering variables to handle sparse input efficiently.",
"title": "Zero Center",
"type": "boolean"
}
},
"title": "ScaleModel",
"type": "object"
}