Encode Toolkit
未认领MCP server and Claude Plugin for a full ENCODE Project genomic data and analysis toolkit — search, download, track, and analyze functional genomics experiments
安装
claude mcp add encode -- uvx encode-toolkit更多Search & Web服务器
浏览完整目录安全概况
已认领和已认证的服务器每周接受一次静态扫描，显示代码能触及的范围（外部服务、环境变量、shell 命令、代理配置目录）以及带有已知公告的依赖。认领此列表即可获得。 安全概况的工作原理
20 个工具中显示 20 个
文档中列出的工具 (20)
内容来自项目文档。服务器握手不会验证每个工具的说明或行为。
encode_batch_download
Search + download in one step. Runs in preview mode by default.
encode_compare_experiments
Analyze whether two experiments are compatible for combined analysis.
encode_download_files
Download specific files by accession to a local directory.
encode_export_data
Export tracked experiments as a table (CSV, TSV, or JSON) for Excel, R, pandas.
encode_get_citations
Get publications for tracked experiments. Export as BibTeX or RIS for reference managers.
encode_get_experiment
Get full details for a single experiment including all files, quality metrics, and audit info.
encode_get_facets
Get live counts from ENCODE showing what data exists for given filters.
encode_get_file_info
Get detailed metadata for a single file.
encode_get_metadata
List valid filter values for any parameter.
encode_get_provenance
View provenance chains from derived files back to source ENCODE data.
encode_get_references
Get external references linked to tracked experiments for cross-server workflows.
encode_link_reference
Link external references (PubMed, bioRxiv, ClinicalTrials, GEO) to tracked experiments.
encode_list_files
List files for a specific experiment with format/type filters.
encode_list_tracked
List all experiments in your local tracker with metadata, publication counts, and derived file counts.
encode_log_derived_file
Log a file you created from ENCODE data for provenance tracking.
encode_manage_credentials
Store, check, or clear ENCODE credentials for restricted data access.
encode_search_experiments
Search ENCODE experiments with 20+ filters.
encode_search_files
Search files across all experiments with combined experiment + file filters.
encode_summarize_collection
Get grouped statistics of your tracked experiment collection.
encode_track_experiment
Track an experiment locally with its publications, methods, and pipeline info.