Installation

bio works on Linux and Mac computers and on Windows when using the Linux Subsystem.

Installation

While the following command should work:

pip install bio --upgrade

We usually recommend installing prerequisites with conda like so:

conda install -c bioconda biopython

then proceed with pip install bio --upgrade.

Quick start

Run a simple fetch command, set the verbose mode to see what is happening:

bio fetch NC_045512 -v

now list the known data:

bio data

try out a conversion:

bio convert NC_045512

Usage

Type bio followed by one or more accession numbers or data names followed by one or more flags or options.

Getting help

bio -h

Tasks

Tasks will have separate help pages that are shown when the command is run with no parameters (or using the -h flag)