Interestingly, many existing bioinformatics command line tools are wrappers for a series of other software, but since that is the goal of workflow managers, they can be used instead. Package managers such as Conda and the package installer for Python (pip) will automatically download and install software and represent the easiest avenue for accessing command line applications. Conda and pip are two popular cross-platform package managers used in bioinformatics for command line applications. Rule 8: Include a simple test dataset After installing a new command line tool, users will want a way to quickly and easily verify that a command line tool is working correctly. [Extracted from the article]