Description Usage Arguments Value Examples
Calculates the optimal leaf ordering pairwise for all linkage groups.
1 |
rf |
Matrix of pairwise recombination frequencies. |
df |
Vector of cluster numbers, created by splitChr(). Zeros indicated filtered markers and will be ignored. |
method |
Name of method. Default: seriation (uses the optimal leaf ordering algorithm from the seriation package). Alternatives endlink (order.endlink from gclus) and endlink-global (ignores linkage groups). |
maxSarf |
Maximum number of neighbor to include into SARF extension. |
Vector of global marker order.
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