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BEDOPS v2.4.41: high-performance genomic feature operations

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BEDOPS v2.4.41 is a suite of tools to address common questions raised in genomic studies — mostly with regard to overlap and proximity relationships between data sets. It aims to be scalable and flexible, facilitating the efficient and accurate analysis and management of large-scale genomic data.

The overview section of the BEDOPS v2.4.41 documentation summarizes the toolkit, functionality and performance enhancements. The reference table offers documentation for all applications and scripts.


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Complete documentation for BEDOPS v2.4.41 tools is available at:


If you use BEDOPS v2.4.41 in your research, please cite the following manuscript:

Shane Neph, M. Scott Kuehn, Alex P. Reynolds, et al.
[BEDOPS: high-performance genomic feature operations
Bioinformatics (2012) 28 (14): 1919-1920.] (


Copyright (C) 2011-2022 Shane J. Neph, M. Scott Kuehn and Alex P. Reynolds

Source code, documentation and media assets released under GNU Public License Version 2 (GPL v2).