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Cufflinks installation for Unix systems
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The [Cufflinks](http://cole-trapnell-lab.github.io/cufflinks/) Unix package is extremely well regarded for RNA-seq analysis. Yet it is widely acknowledged that installation is difficult, not least by the [Cufflinks authors themselves](http://cole-trapnell-lab.github.io/cufflinks/getting_started/#installing-a-pre-compiled-binary-release)! Whilst the authors provide precompiled binaries to make the installation process easier [the instructions aren't very explicit](http://cole-trapnell-lab.github.io/cufflinks/getting_started/). Having spent a good hour on Google and StackOverflow I've put together an instruction list for the less experienced Unix user like myself. | |
Note this guide is for Unix distributions. | |
1. Download the Cufflinks tar from http://cole-trapnell-lab.github.io/cufflinks/install/ | |
'''shell | |
wget http://cole-trapnell-lab.github.io/cufflinks/install/ | |
''' | |
2. Untar the downloaded file | |
'''shell | |
tar -xvf cufflinks-2.2.1.Linux_x86_64.tar.gz | |
''' | |
3. Move the resulting files to '/usr/local/bin' | |
'''shell | |
sudo mv ./cufflinks-2.2.1.Linux_x86_64 /usr/local/bin | |
''' | |
4. Add the directory to the 'PATH' variable for system wide calling | |
'''shell | |
export PATH=$PATH:/usr/local/bin/cufflinks-2.2.1.Linux_x86_64 | |
''' | |
5. Test by running the program from the home directory. If the installation has worked then the usage for cufflinks should be printed to the screen. | |
'''shell | |
cd ~ | |
cufflinks | |
''' |
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Thanks that is helped me a lot