What is FRED2

FRED 2 is a framework for T-cell epitope detection, and vaccine design. It offers consistent, and easy access to well established immunoinformatics methods.

Getting Started

The best way to familiarize yourself with FRED 2 is by starting with our tutorials. The tutorials cover the basic functionality of FRED2.


We spent a significant amount of effort on documenting FRED 2’s functions and classes. You can find the documentation here.

Get Involved

Your favorite prediction method is missing? You discovered a bug, or just want to extend FRED 2's functionality? Have a look at our tutorials for developers here.

Latest Posts

Fred 2 Release v2.0.2  

Thursday, July 07, 2016
Today we have release Fred2 2.0.2 which adds a couple of new epitope prediction tools and other functionalities. Added Features: NetMHC 4.0 NetMHCpan 3.0 NetMHCstabpan 1.0 CalisImmunoscore ParetoAssembler: String-of-beads assembler that simultaneously optimizes cleavage likelihood and neo-immunogenicity Support of complex HLA-DRQ,DP alleles via CombinedAllele class Misc: ILP models were updated...

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String-of-Beads design  

Monday, February 29, 2016
We added a new approach for string-of-beads design. It optimally designs spacer sequences and the odering of the therapeutic epitopes to maximize the epitope’s recovery probabilities and simmultaniously reduces the risk of neo-epitope formation at the junctions between epitopes. You can check out the original publication here: Schubert, B., &...

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FRED 2 is published in Bioinformatics!  

Monday, February 29, 2016
We are happy to announce that FRED 2 got published in Bioinformatics. Check it out: Schubert, B., Walzer, M., Brachvogel, H-P., Sozolek, A., Mohr, C., and Kohlbacher, O. (2016). FRED 2 - An Immunoinformatics Framework for Python. Bioinformatics 2016; doi: 10.1093/bioinformatics/btw113 When working with FRED 2, please also cite the...

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Fred 2 Release v2.0.1  

Friday, December 18, 2015
Today we have release Fred2 2.0.1 that fixes a couple of small errors in the Fred2 2.0.0 release. Fred2 2.0.1 is available for download at: https://github.com/FRED-2/Fred2/releases/tag/v2.0.1 or can be installed via pip with: pip install git+https://github.com/FRED-2/Fred2

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