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haploReconstruct (version 0.1.2)
Reconstruction of Haplotype-Blocks from Time Series Data
Description
Reconstruction of founder haplotype blocks from time series data.
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Version
Version
0.1.2
Install
install.packages('haploReconstruct')
Monthly Downloads
1
Version
0.1.2
License
GPL-3
Maintainer
Susanne Franssen
Last Published
October 10th, 2016
Functions in haploReconstruct (0.1.2)
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initialize_SNP_time_series
Initialization of time series data as input for haplotype reconstruction
summary,hbr-method
Method to summarize information of reconstructed haplotype-blocks
rev_map,hbr-method
Map from windows to reconstructed haplotype-blocks
show,hbr-method
Display of a hbr object
plot_marker_trajectories,hbr-method
Method to visualize the trajectories for all markers in a haplotype-block
show,SNP_time_series-method
Display of a SNP_time_series object
sync_to_frequencies
Data input from a sync file
plot,hbr-method
Method to visualize reconstructed haplotype-blocks
plot_hbr_freq,hbr-method
Plots frequencies of a reconstructed haplotype-block along the chromosome
reconstruct_hb,SNP_time_series-method
Reconstruction of haplotype-blocks
map,hbr-method
Map from reconstructed haplotype-blocks to windows
inspect_window,hbr-method
Haplotype-block marker inspection for a window
number_hbr,hbr-method
The number of reconstructed haplotype-block
plot_cluster_trajectories,hbr-method
Method to visualize the trajectories for all identified clusters in a window
inspect_window_avLink,hbr-method
Hierachical clustering of haplotype-block marker for a window
inspect_window_dbScan,hbr-method
Clustering with the dbscan algorithm
ex_dat
Example data set
inspect_window_PCA,hbr-method
PCA of haplotype-block marker for a window
markers,hbr-method
Markers of the specified reconstructed haplotype-block