SRA Toolkit

The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives.

Documentation

• SRA Toolkit web site
• SRA Toolkit GitHub page

Usage on Bridges-2

To see what versions of SRA Toolkit are available and if there is more than one, which is the default, along with some help, type

module spider sra-toolkit

To use SRA Tookit, include a command like this in your batch script or interactive session to load the SRA Toolkit module: (note ‘module load’ is case-sensitive):

module load sra-toolkit

Usage on Bridges

To see what versions of SRA Toolkit are available type

module avail sra-toolkit

To see what other modules are needed, what commands are available and how to get additional help type

module help  sra-toolkit

To use SRA Toolkit, include a command like this in your batch script or interactive session to load the SRA Toolkit module:

module load sra-toolkit

Be sure you also load any other modules needed, as listed by the module help sra-toolkit command.