Single Cell Tools

Configuration File: packages/single_cell_tools.json Tool Type: Local Tools Count: 14

This page contains all tools defined in the single_cell_tools.json configuration file.

Available Tools

get_anndata_info (Type: PackageTool)

Get comprehensive information about AnnData – annotated data for computational biology

get_anndata_info tool specification

Tool Information:

  • Name: get_anndata_info

  • Type: PackageTool

  • Description: Get comprehensive information about AnnData – annotated data for computational biology

Parameters:

  • include_examples (boolean) (optional) Whether to include usage examples and quick start guide

Example Usage:

query = {
    "name": "get_anndata_info",
    "arguments": {
    }
}
result = tu.run(query)

get_cellrank_info (Type: PackageTool)

Get information about the cellrank package. Trajectory inference and cell fate mapping in single-…

get_cellrank_info tool specification

Tool Information:

  • Name: get_cellrank_info

  • Type: PackageTool

  • Description: Get information about the cellrank package. Trajectory inference and cell fate mapping in single-cell data

Parameters:

No parameters required.

Example Usage:

query = {
    "name": "get_cellrank_info",
    "arguments": {
    }
}
result = tu.run(query)

get_episcanpy_info (Type: PackageTool)

Get information about the episcanpy package. Epigenomics single cell analysis in Python

get_episcanpy_info tool specification

Tool Information:

  • Name: get_episcanpy_info

  • Type: PackageTool

  • Description: Get information about the episcanpy package. Epigenomics single cell analysis in Python

Parameters:

No parameters required.

Example Usage:

query = {
    "name": "get_episcanpy_info",
    "arguments": {
    }
}
result = tu.run(query)

get_mudata_info (Type: PackageTool)

Get comprehensive information about MuData – multimodal annotated data for computational biology

get_mudata_info tool specification

Tool Information:

  • Name: get_mudata_info

  • Type: PackageTool

  • Description: Get comprehensive information about MuData – multimodal annotated data for computational biology

Parameters:

  • include_examples (boolean) (optional) Whether to include usage examples and quick start guide

Example Usage:

query = {
    "name": "get_mudata_info",
    "arguments": {
    }
}
result = tu.run(query)

get_palantir_info (Type: PackageTool)

Get information about the palantir package. Algorithm for modeling continuous cell state transitions

get_palantir_info tool specification

Tool Information:

  • Name: get_palantir_info

  • Type: PackageTool

  • Description: Get information about the palantir package. Algorithm for modeling continuous cell state transitions

Parameters:

No parameters required.

Example Usage:

query = {
    "name": "get_palantir_info",
    "arguments": {
    }
}
result = tu.run(query)

get_pyscenic_info (Type: PackageTool)

Get comprehensive information about pySCENIC – single-cell regulatory network inference

get_pyscenic_info tool specification

Tool Information:

  • Name: get_pyscenic_info

  • Type: PackageTool

  • Description: Get comprehensive information about pySCENIC – single-cell regulatory network inference

Parameters:

  • info_type (string) (required) Type of information to retrieve about pySCENIC

Example Usage:

query = {
    "name": "get_pyscenic_info",
    "arguments": {
        "info_type": "example_value"
    }
}
result = tu.run(query)

get_scanorama_info (Type: PackageTool)

Get information about the scanorama package. Batch correction and integration of single-cell data

get_scanorama_info tool specification

Tool Information:

  • Name: get_scanorama_info

  • Type: PackageTool

  • Description: Get information about the scanorama package. Batch correction and integration of single-cell data

Parameters:

No parameters required.

Example Usage:

query = {
    "name": "get_scanorama_info",
    "arguments": {
    }
}
result = tu.run(query)

get_scanpy_info (Type: PackageTool)

Get comprehensive information about Scanpy – scalable single-cell analysis in Python

get_scanpy_info tool specification

Tool Information:

  • Name: get_scanpy_info

  • Type: PackageTool

  • Description: Get comprehensive information about Scanpy – scalable single-cell analysis in Python

Parameters:

  • include_examples (boolean) (optional) Whether to include usage examples and quick start guide

Example Usage:

query = {
    "name": "get_scanpy_info",
    "arguments": {
    }
}
result = tu.run(query)

get_scrublet_info (Type: PackageTool)

Get comprehensive information about Scrublet – single-cell doublet detection

get_scrublet_info tool specification

Tool Information:

  • Name: get_scrublet_info

  • Type: PackageTool

  • Description: Get comprehensive information about Scrublet – single-cell doublet detection

Parameters:

  • include_examples (boolean) (optional) Whether to include usage examples and quick start guide

Example Usage:

query = {
    "name": "get_scrublet_info",
    "arguments": {
    }
}
result = tu.run(query)

get_scvelo_info (Type: PackageTool)

Get comprehensive information about scVelo – RNA velocity analysis in single cells

get_scvelo_info tool specification

Tool Information:

  • Name: get_scvelo_info

  • Type: PackageTool

  • Description: Get comprehensive information about scVelo – RNA velocity analysis in single cells

Parameters:

  • include_examples (boolean) (optional) Whether to include usage examples and quick start guide

Example Usage:

query = {
    "name": "get_scvelo_info",
    "arguments": {
    }
}
result = tu.run(query)

get_scvi_tools_info (Type: PackageTool)

Get information about the scvi-tools package. Deep probabilistic analysis of single-cell omics data

get_scvi_tools_info tool specification

Tool Information:

  • Name: get_scvi_tools_info

  • Type: PackageTool

  • Description: Get information about the scvi-tools package. Deep probabilistic analysis of single-cell omics data

Parameters:

No parameters required.

Example Usage:

query = {
    "name": "get_scvi_tools_info",
    "arguments": {
    }
}
result = tu.run(query)

get_souporcell_info (Type: PackageTool)

Get comprehensive information about souporcell – scRNA-seq genotype clustering

get_souporcell_info tool specification

Tool Information:

  • Name: get_souporcell_info

  • Type: PackageTool

  • Description: Get comprehensive information about souporcell – scRNA-seq genotype clustering

Parameters:

  • info_type (string) (required) Type of information to retrieve about souporcell

Example Usage:

query = {
    "name": "get_souporcell_info",
    "arguments": {
        "info_type": "example_value"
    }
}
result = tu.run(query)

get_tiledbsoma_info (Type: PackageTool)

Get comprehensive information about TileDB-SOMA – single-cell data storage with TileDB

get_tiledbsoma_info tool specification

Tool Information:

  • Name: get_tiledbsoma_info

  • Type: PackageTool

  • Description: Get comprehensive information about TileDB-SOMA – single-cell data storage with TileDB

Parameters:

  • info_type (string) (required) Type of information to retrieve about TileDB-SOMA

Example Usage:

query = {
    "name": "get_tiledbsoma_info",
    "arguments": {
        "info_type": "example_value"
    }
}
result = tu.run(query)

get_velocyto_info (Type: PackageTool)

Get information about the velocyto package. RNA velocity analysis for single cell RNA-seq data

get_velocyto_info tool specification

Tool Information:

  • Name: get_velocyto_info

  • Type: PackageTool

  • Description: Get information about the velocyto package. RNA velocity analysis for single cell RNA-seq data

Parameters:

No parameters required.

Example Usage:

query = {
    "name": "get_velocyto_info",
    "arguments": {
    }
}
result = tu.run(query)