Free, open-source application for identification of cross-linked peptides from mass spectra.
- Use virtually any stable cross-linker chemistry
- Analyze isotopically labeled or non-labeled data
- Supports open data formats (including mzXML and mzML)
- Pre-compiled binaries get you started quickly
Released on December 1 2017
Precompiled binaries provided for Windows and Linux. Free and open source, can be compiled on virtually any operating system including Windows, Linux, and MacOS.Get It Now » Quick Start Guide »
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Site Refresh and More To Come
Nov 7 2019
There are major upcoming changes to Kojak and the website. You might have noticed that the usual release schedule had slowed down. This was to make time ...Read More »
Kojak Spectrum Viewer
Visualize MS/MS spectral results from Kojak. Multi-platform graphical user interface and publication quality exporter of cross-linked spectral images.
Multi-platform graphical interface for using Kojak, combined with downstream validation tools to estimate probabilities and FDR of Kojak results.
ProXL: Protein XL Database
Analyze, visualize, and share your protein cross-linking data. Import Kojak results, combine multiple analyses, mine protein links, and produce 3D protein structure overlays.