# ORF-RATER
ORF-RATER (Open Reading Frame - Regression Algorithm for Translational Evaluation of Ribosome-protected footprints) comprises a series of scripts for coding sequence annotation based on ribosome profiling data.

The software was created at [Jonathan Weissman's lab at UCSF](http://weissmanlab.ucsf.edu/) and is described in Fields, Rodriguez, et al., "A regression-based analysis of ribosome-profiling data reveals a conserved complexity to mammalian translation", Molecular Cell (2015), in press.

Usage information can be found in the Detailed Protocol included in the paper's supplemental materials, or by running each script with the --help/-h flag.

Some features require the [multiisotonic](https://github.com/alexfields/multiisotonic) package.

Contact Alex Fields for further information or assistance.

# ORF-RATER
ORF-RATER (Open Reading Frame - Regression Algorithm for Translational Evaluation of Ribosome-protected footprints) comprises a series of scripts for coding sequence annotation based on ribosome profiling data.

The software was created at [Jonathan Weissman's lab at UCSF](http://weissmanlab.ucsf.edu/) and is described in [Fields, Rodriguez, et al., "A regression-based analysis of ribosome-profiling data reveals a conserved complexity to mammalian translation", *Molecular Cell* **60**, 816-827 (2015).](http://dx.doi.org/10.1016/j.molcel.2015.11.013)

Usage information can be found in the Detailed Protocol included in the paper's supplemental materials, or by running each script with the --help/-h flag.

Some features require the [multiisotonic](https://github.com/alexfields/multiisotonic) package.

Contact Alex Fields for further information or assistance.

Add full paper citation and link to readme
Add full paper citation and link to readme