summary-hbr-method: Method to summarize information of reconstructed...

In haploReconstruct: Reconstruction of Haplotype-Blocks from Time Series Data

Description

The method summarizes information of the reconstructed haplotype-blocks for a chromosome.

Usage

## S4 method for signature 'hbr'
summary(object, min.marker = 1)

Arguments

object	object of class hbr containing the results of reconstructed haplotype blocks to be summarized.
min.marker	numeric specifying the minimum number of markers a haplotype-block to be reported. NOTE: IDs of haplotype-blocks in the provided summary are identical to the IDs of the previously identified blocks.

Details

The method operates on hbr objects and summarizes information of reconstructed haplotype-blocks

Value

data.table with row entries for each reconstructed haplotype-block and columns for: chr (chromosome), id (numbering of selected blocks), n.marker (number of markers in the reconstructed block), spos, epos (starting and end position of the block), len.pos (length of the block in bp), MperMb (number of markers per Mb), swin, ewin (starting and end window of the block)

Author(s)

Susanne U. Franssen

See Also

hbr ex_dat plot.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

haploReconstruct documentation built on May 2, 2019, 1:46 p.m.