Tag: encode-project
Manage and track ENCODE experiments locally
This skill enables local management of ENCODE experiments by tracking metadata, publications, and data provenance in a SQLite database. It supports experiment comparison, citation export in multiple formats, and the logging of derived files…
Downloading ENCODE Genomics Data Files
Facilitates the automated retrieval and organisation of ENCODE genomics files, such as BED, FASTQ, and BAM, to a local filesystem. Supports batch processing with MD5 verification and configurable directory structures based on experiment or …
Searching and Exploring ENCODE Genomics Data
Provides a structured strategy for searching and exploring ENCODE Project genomics data using facets and metadata. It facilitates the discovery of experiments, files, and specific biological parameters like assays, organs, and cell lines.
NCBI GEO and ENCODE Data Connector
Search, query, and cross-reference NCBI GEO datasets with ENCODE experiments to identify complementary genomic data. The skill facilitates downloading metadata, series matrices, and supplementary files while enabling the linking of GEO acce…