GlyQ-IQ is software that performs a targeted, chromatographic centric search of mass spectral data for glycans. The software uses a list of glycan targets to search for expected features in MS1 spectra. Features are characterized by monoisotopic mass, elution time, and isotopic fit score. Features are annotated by glycan family relationships and in-source fragmentation patterns.

Note: GlyQ-IQ is provided on an as-is basis and is no longer supported.

GlyQ-IQ: glycomics quintavariate-informed quantification with high-performance computing and GlycoGrid 4D visualization.


Software Instructions

The downloadable zip file contains the executables, plus example parameter files and batch files for automation. See batch file RunPeakDetector.bat for example usage.

L_13_HighMannose_TargetsFirstAll.txt includes a target list of 10 high mannose glycans. Files with more extensive lists of glycans are also included in the Libraries folder.

Prior to using GlyQ-IQ you must download and install the MSFileReader by creating an account at, then logging in and choosing “Utility Software”


All publications that utilize this software should provide appropriate acknowledgement to PNNL and the GlyQ-IQ publication. However, if the software is extended or modified, then any subsequent publications should include a more extensive statement, as shown in the Readme file for the given application or on the website that more fully describes the application.


These programs are primarily designed to run on Windows machines. Please use them at your own risk. This material was prepared as an account of work sponsored by an agency of the United States Government. Neither the United States Government nor the United States Department of Energy, nor Battelle, nor any of their employees, makes any warranty, express or implied, or assumes any legal liability or responsibility for the accuracy, completeness, or usefulness or any information, apparatus, product, or process disclosed, or represents that its use would not infringe privately owned rights.

Portions of this research were supported by the NIH National Center for Research Resources (Grant RR018522), the W.R. Wiley Environmental Molecular Science Laboratory (a national scientific user facility sponsored by the U.S. Department of Energy’s Office of Biological and Environmental Research and located at PNNL), and the National Institute of Allergy and Infectious Diseases (NIH/DHHS through interagency agreement Y1-AI-4894-01). PNNL is operated by Battelle Memorial Institute for the U.S. Department of Energy under contract DE-AC05-76RL0 1830.

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