Description Usage Arguments Details Author(s) See Also
The method visualizes reconstructed haplotype-blocks for a chromosome.
1 2 3 4 5 |
x |
object of class |
min.marker |
numeric specifying the minimum number of markers a haplotype-block should contain in order to be visualized. |
xlab |
Label of the x-axis with the default value 'Genomic position [MB]'. |
ylab |
Label of the y-axis with the default value 'Reconstructe haplotype-block'. |
main |
Plot title (default: "Chromosome XX"). |
col |
Color of the lines representing the haplotype-blocks (default: "black"). |
lwd |
Line width of the lines representing the haplotype-blocks (default: 4). |
hline |
Distance between horizontal lines plotted for orientation (default: 10). |
indicate_shared |
logical value specifying if "spurious" markers that are identical between pairs of haplotype-blocks should be indicated. This function is usefull for inspecting results and deciding whether all identified blocks are all independent or maybe reconstruction parameters should be changed. |
addPoints |
logical value indicating if for each reconstructed block markers should additionally be indicated. |
hbr_plot |
boolean vector of length the number of reconstructed bocks indicating which ones should be plotted |
... |
arguments of the generic plot method. |
The method operates on hbr
objects and visualizes location of
reconstructed haplotype-blocks with respect to its genomic position.
Susanne U. Franssen
hbr
ex_dat
summary.hbr
plot_cluster_trajectories
plot_marker_trajectories
map
rev_map
markers
plot_hbr_freq
inspect_window
inspect_window_PCA
inspect_window_avLink
inspect_window_dbScan
number_hbr
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