plot_LD: Plot LD vs distance
In jendelman/MapRtools: Tools for genetic mapping
plot_LD R Documentation
Plot LD vs distance
Description
Plot LD vs distance
Usage
plot_LD(r2, map, max.pair = 10000, dof = 8)
Arguments
r2
squared correlation matrix
map
data frame with 3 columns (marker, chrom, position)
max.pair
maximum number of r2 pairs for the spline
dof
degrees of freedom for the spline
Details
A monotone decreasing, convex spline is fit using R package scam. The input matrix r2 should have rownames attribute that matches marker names in the first column of map.
Value
List containing
- plot
ggplot object
- spline
data frame with fitted values for the spline
jendelman/MapRtools documentation built on April 12, 2025, 12:46 p.m.
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| plot_LD | R Documentation |
Plot LD vs distance
Description
Plot LD vs distance
Usage
plot_LD(r2, map, max.pair = 10000, dof = 8)
Arguments
r2 |
squared correlation matrix |
map |
data frame with 3 columns (marker, chrom, position) |
max.pair |
maximum number of r2 pairs for the spline |
dof |
degrees of freedom for the spline |
Details
A monotone decreasing, convex spline is fit using R package scam. The input matrix r2 should have rownames attribute that matches marker names in the first column of map.
Value
List containing
- plot
ggplot object
- spline
data frame with fitted values for the spline
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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