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For studies involving the stickleback EcoRI RAD tags, 10 contiguous markers were binned and the numbers of linked markers were counted (i.e. number of markers lacking RS-specific RAD tags in the low-plate population, or having fewer than three BP-specific RAD tags in the high-plate population).
The r-values for all pairwise combinations of markers were binned according to the physical distances separating the markers.
Neighboring markers were binned based on similarity scores and linked markers within each bin were counted using custom Perl scripts.
During construction of the consensus graph, DAGGER also keeps track of which markers were binned in the linkage maps.
Because the aforementioned hina and gsp markers were binned with 1_0745 and 2_0894 in the SM linkage map, and because their relationship to 3_0983 hinb) is indeterminate from the linkage maps, MergeMap binned all six markers together.
Due to population size and the large portion of markers that co-segregated, markers were binned and only one SNP or SSR marker per locus was kept to obtain two abridged maps that consisted of 712 and 884 markers (Fig. 2), with a mean interval between adjacent markers of 1.47 cM and 1.51 cM for RGT and GD, respectively.
Similar(53)
The unphysical relationships in the simplified graph from MergeMap arise because of the way markers are binned.
The class I markers were bin-mapped to guide the selection of markers with genome wide distribution for various genotyping applications in rice.
A further 158 markers were bin-mapped to the reference map: 59 ripening candidate genes, 50 cold-responsive genes, and 50 novel EST-SSRs from ChillPeach, with deduced locations in Pop-DG via comparative mapping.
First, all marker pairs were binned according to the physical distance Δ in 100 discrete bins of 0.05 Mbp width.
a LG = linkage group b Map position: If the marker was bin-mapped, the interval covered by the bin where the marker is located c E-value at NCBI database restricted to plant sequences d Predicted function e Marker type detected Two mapping strategies were used in the placement of novel markers on both the T×E and FV×FN linkage maps (Table 3).
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