filter_genes

Filter genes in single-cell RNA sequencing data by setting thresholds for minimum/maximum cell counts or expression levels to refine analysis inputs.

Instructions

Filter genes based on number of cells or counts

Input Schema

Name	Required	Description
`max_cells`	No	Maximum number of cells expressed required for a gene to pass filtering.
`max_counts`	No	Maximum number of counts required for a gene to pass filtering.
`min_cells`	No	Minimum number of cells expressed required for a gene to pass filtering.
`min_counts`	No	Minimum number of counts required for a gene to pass filtering.

Input Schema (JSON Schema)

{
  "description": "Input schema for the filter_genes preprocessing tool.",
  "properties": {
    "max_cells": {
      "anyOf": [
        {
          "type": "integer"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Maximum number of cells expressed required for a gene to pass filtering.",
      "title": "Max Cells"
    },
    "max_counts": {
      "anyOf": [
        {
          "type": "integer"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Maximum number of counts required for a gene to pass filtering.",
      "title": "Max Counts"
    },
    "min_cells": {
      "anyOf": [
        {
          "type": "integer"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Minimum number of cells expressed required for a gene to pass filtering.",
      "title": "Min Cells"
    },
    "min_counts": {
      "anyOf": [
        {
          "type": "integer"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Minimum number of counts required for a gene to pass filtering.",
      "title": "Min Counts"
    }
  },
  "title": "FilterGenes",
  "type": "object"
}

SCMCP

filter_genes

Instructions

Input Schema

Input Schema (JSON Schema)

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