PureCLIP is a tool to detect protein-RNA interaction footprints from single-nucleotide CLIP-seq data, such as iCLIP and eCLIP.
You can install PureCLIP from Bioconda, from the release tarballs and from source.
Using Conda with an activated Bioconda channel is the easiest way to install PureCLIP:
$ conda install pureclip
Alternatively, you can get the source code and binaries for macOS and Linux here.
PureCLIP has also been integrated into the European Galaxy server https://usegalaxy.eu/, an open, web-based platform for accessible, reproducible, and transparent computational biological research and is available here (currently not using latest PureCLIP version).
Thanks to the Freiburg Galaxy Team!
Clone the repository
$ git clone https://github.com/skrakau/PureCLIP.git
$ cd PureCLIP
Create a build directory, configure the build and compile
$ mkdir build
$ cd build
$ cmake ../src
$ make
Requirements
- C++14 compliant compiler
- GSL
- cmake 3.0 or newer
Please have a look at PureCLIPs documentation.
Krakau S, Richard H, Marsico A: PureCLIP: Capturing target-specific protein-RNA interaction footprints from single-nucleotide CLIP-seq data. Genome Biology 2017; 18:240; https://doi.org/10.1186/s13059-017-1364-2