Description Usage Arguments Value
Annotate LOD peaks with variance explained, effect size, and confidence interval bounds
1 2 3 4 5 6 7 | annotate_lods(
lods,
cross,
annotate_all = FALSE,
bayes = FALSE,
cutoff = "chromosomal"
)
|
lods |
A data frame output by the mapping functions to be converted to a
|
cross |
The cross object used for the original mapping |
annotate_all |
Boolean whether or not to annotate all markers with
variance explained and effect size. If |
bayes |
Boolean whether or not to calculate confidence intervals based on Bayes statistics (LOD drop 1.5 used to find CI by default) |
cutoff |
Determines strategy for setting CI (not available for Bayes CIs). Either "chromosomal" (default), including leftmost and rightmost markers across peak chromosome with LOD above cutoff or "proximal" that ends the CI at the most proximal left and right marker that drop below cutoff. |
The annotated lods data frame with information added for peak markers of each iteration
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