makeDefaultMarkerIDs: Make default marker IDs for loci.
In gact/shmootl: QTL Analysis Utilities for Yeast

Description Usage Arguments Value Default Marker IDs Author(s)

This function creates marker IDs from locus data.frame 'loc', and validates that each locus has a map position that is within range for the given reference sequence/chromosome. If any locus position is found to be out-of-range, then it will stop with an error message.

1	makeDefaultMarkerIDs(loc, sep = c(":", "-"))

`loc`	Locus `data.frame`, with columns `'chr'` and `'pos'`, specifying physical map positions.
`sep`	Separator between the two parts of a default marker ID.

Character vector of default marker IDs.

Default marker IDs are assigned to loci of a physical map if no other marker ID is available. These are of the form 'c04:0108900', where '04' is a zero-padded two-digit chromosome number and '0108900' is a zero-padded seven-digit number giving the physical map position of the given locus (i.e. the nucleotide position of the locus in the reference sequence).

Thomas Walsh <tw164@protonmail.com>

Yue Hu

gact/shmootl documentation built on Nov. 11, 2021, 6:23 p.m.