# ammawla/encode-toolkit

Source: https://glimind.com/server/awesome%2Fammawla%2Fencode-toolkit
Registry id: `awesome/ammawla/encode-toolkit`
Status: unknown

## Tools (21)

- `download_file`: Get download URL for an ENCODE file
- `get_annotation`: Get detailed information about a specific ENCODE annotation by accession
- `get_antibody`: Get detailed information about a specific ENCODE antibody by accession
- `get_biosample`: Get detailed information about a specific ENCODE biosample by accession
- `get_donor`: Get detailed information about a specific ENCODE donor by accession
- `get_experiment`: Get detailed information about a specific ENCODE experiment by accession
- `get_file`: Get detailed information about a specific ENCODE file by accession
- `get_matrix`: Get ENCODE matrix data for comparative analysis across experiments
- `get_pipeline`: Get detailed information about a specific ENCODE pipeline by accession
- `get_publication`: Get detailed information about a specific publication by PMID
- `get_target`: Get detailed information about a specific ENCODE target by accession
- `search_annotations`: Search ENCODE genome annotations (e.g., cCREs, TF clusters)
- `search_antibodies`: Search ENCODE antibodies used in experiments
- `search_biosamples`: Search ENCODE biosamples by tissue, cell line, or organism
- `search_donors`: Search ENCODE donors by characteristics
- `search_experiments`: Search ENCODE experiments by tissue, cell line, assay type, or biosample
- `search_files`: Search ENCODE files by experiment, format, or assembly
- `search_genomic_region`: Search for ENCODE data overlapping a genomic region
- `search_pipelines`: Search ENCODE analysis pipelines
- `search_publications`: Search ENCODE-related publications
- `search_targets`: Search ENCODE targets (e.g., transcription factors, histone marks)

Measured by Glimind (https://glimind.com): MCP handshake + tool list only, no tool is ever called. CC BY 4.0.