A Node.js wrapper for SRA Toolkit.
You need to install the latest Node.JS first, please check nodejs.org or do the following:
# Ubuntu
sudo apt-get install npm
# Mac
brew install node
# Both
npm install -g n
n stable
To use bionode-sra
as a command line tool, you can install it globally with -g
.
npm install bionode-sra -g
Or, if you want to use it as a JavaScript library, you need to install it in your local project folder inside the node_modules
directory by doing the same command without -g
.
npm i bionode-sra # 'i' can be used as shortcut to 'install'
If you're using bionode-sra with Node.js, you can require the module:
var sra = require('bionode-sra')
var fastqDump = sra('fastq-dump')
fastqDump('SRR1509835.sra')
Please read the documentation for the methods exposed by bionode.
$ bionode-sra fastq-dump SRR1509835.sra
$ bionode-sra fastq-dump SRR1509835.sra fastqOutputDirectory
Check our documentation at doc.bionode.io or do:
bionode-sra --help
We welcome all kinds of contributions at all levels of experience, please read the CONTRIBUTING.md to get started!
Don't be shy! Come talk to us :smiley: