RECORD (REcombination Counting and ORDering) can be used for the ordering of loci on genetic linkage maps. The method minimises the total number of recombination events. The search algorithm is a heuristic procedure, combining elements of branch-and-bound with local reshuffling.
Since the criterion does not require intensive calculations, the algorithm rapidly produces an optimal ordering as well as a series of near-optimal ones. The latter provides insight into the local certainty of ordering along the map.
RECORD can deal with the following types of mapping populations: BC1, F2, F3, RILs (in fact any generation obtained by repeated selfing of a hybrid between homozygous parents). Mapping populations from non-inbreds should be split into BC1 or HAP data that represent the maternal and paternal gametes, according to the two-way pseudo-testcross method. Please provide the data in a .LOC file in JoinMap format.
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RECORD: a novel method for ordering loci on a genetic linkage map.
Van Os H, Stam P, Visser RG, Van Eck HJ.
Theor Appl Genet. 2005 Dec;112(1):30-40. Epub 2005 Oct 14. Erratum in: Theor Appl Genet. 2006 Jan;112(2):389.