## PrOCoil - Predicting the Oligomerization of Coiled Coil Proteins

We have developed an SVM-based classification method for predicting whether a given coiled coil sequence is a trimer or dimer (assuming that it is one of both). This method also allows for a deep analysis of the sequence which residues are mainly responsible for the outcome. The software is available as an R package`procoil`and as a

**simple-to-use Web application**. All data used for evaluating the computational approach and for training the final models are

**available for download**.

### Installation of R package `procoil` via Bioconductor

The R package `procoil`is available from Bioconductor. The current version of the package is 1.20.0 and has been released as part of Bioconductor 3.2 on October 14, 2015. To install

`procoil`, follow the simple standard procedure for installing Bioconductor packages, i.e. enter the following into your R session:

Please note that Bioconductor 3.2 requires an R version ≥ 3.2.2. The current development version of the package is 1.99.1.source("http://www.bioconductor.org/biocLite.R") biocLite("procoil")

### Getting started

To use the package, enter "`library(procoil)`" in your R session. To get a basic introduction, enter "

`help(procoil)`" or open the user manual by entering "

`vignette("procoil")`".

#### Documentation

- User Manual: PDF (also contains documentation of Web interface)
- Reference Manual: PDF

### How to cite PrOCoil

If you use PrOCoil for research that is published later, you are kindly asked to cite it as follows:C. C. Mahrenholz, I. G. Abfalter, U. Bodenhofer, R. Volkmer, and S. Hochreiter. Complex networks govern coiled coil oligomerization - predicting and profiling by means of a machine learning approach.Mol. Cell. Proteomics10(5):M110.004994, 2011. DOI: 10.1074/mcp.M110.004994