synop_ril906: Synthetic x Opata genetic map, 906 RIL lines
In etnite/bwardr: Brian Ward personal R package

synop_ril906

R Documentation

Synthetic x Opata genetic map, 906 RIL lines

Description

A dataframe adapted from Supplementary Dataset S6 of Gutierrez-Gonzalez et al., 2019 containing map data on SNPs generated by a PstI-MspI double digest genotyping-by-sequencing (GBS) protocol, with physical positions from the International Wheat Genome Sequencing Consortium (IWGSC) v1.0 Chinese Spring wheat Reference Sequence and genetic positions derived from a population of 906 recombinant inbred lines (RILs) descended from the Synthetic x Opata cross. Gutierrez-Gonzalez et al. performed imputation using the R package LaByRInth (https://github.com/Dordt-Statistics-Research/LaByRInth), which is an adaptation of the LB-Impute algorithm. Several outlier SNPs were removed from this dataset, leaving 46,600 markers.

Usage

synop_ril906

Format

A data frame with 4,027 rows and 3 variables:

chr: chromosome name
id: SNP identifier
dist: genetic position, in centiMorgans (cM)
pos: phyiscal position, in base pairs (bp)

Details

This data is in the format required for PLINK .map files. However, note that many programs that use PLINK files may require the header to be removed, and may require genetic distances to be converted to Morgans.