ncbi_cli

Description

ncbi_cli website

This module enables the use of the NCBI Datasets command line tool interface NCBI Datasets is a resource that lets you gather data from across NCBI databases. Use it to find and download sequence, annotation, and metadata for genes and genomes using the command-line interface (CLI) tools. Use "datasets" to download biological sequence data across all domains of life from NCBI. Use "dataformat" to convert metadata from JSON Lines format to other formats. For more information, refer to the documentation: https://www.ncbi.nlm.nih.gov/datasets/docs/v2/reference-docs/command-line/ Also see the How-to guides: https://www.ncbi.nlm.nih.gov/datasets/docs/v2/how-tos/ Modules system sets up the following environment variables for this module:

Environment Modules

Run module spider ncbi_cli to find out what environment modules are available for this application.

Environment Variables

• HPC_NCBI_CLI_DIR - installation directory

Categories

biology, sequencing, library