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About Fastbreak

Fastbreak is a rule-based O(n) algorithm for detecting translocations and other genetic structural variants from aligned mate pair sequence data in SAM/BAM format. It is primarily of use as a coarse screen or prefilter for structural variation in studies where the amount of data prevents other methods from finishing in a reasonable amount of time.


Bressler R, Lin J, Eakin A, Robinson T, Kreisberg R, Rovira H, Knijnenburg T, Boyle J, Shmulevich I. Fastbreak: a tool for analysis and visualization of structural variations in genomic data. EURASIP J Bioinform Syst Biol. 2012 Oct 9;2012(1):15. doi: 10.1186/1687-4153-2012-15. PMID: 23046488; PMCID: PMC3605143.

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