Rice_geno_map

A dataset containing the information of phycical map of rice genome (Zhao et al., 2010; PLoS One 5(5): e10780).

By using 'RAINBOWR' (Reliable Association INference By Optimizing Weights with R), users can test multiple SNPs (Single Nucleotide Polymorphisms) simultaneously by kernel-based (SNP-set) methods. This package can also be applied to haplotype-based GWAS (Genome-Wide Association Study). Users can test not only additive effects but also dominance and epistatic effects. In detail, please check our paper on PLOS Computational Biology: Kosuke Hamazaki and Hiroyoshi Iwata (2020) <doi:10.1371/journal.pcbi.1007663>.

Kosuke Hamazaki

RAINBOWR

Genome-Wide Association Study with SNP-Set Methods

Hiroyoshi Iwata

Rice_geno_map function

A data frame with 1311 rows and 3 variables:<dl>
 <dt>marker</dt>
<dd>marker name for each marker, character</dd> <dt>chr</dt>
<dd>chromosome number for each marker, integer</dd> <dt>pos</dt>
<dd>physical position for each marker, integer, (b.p.)</dd>
</dl>

Format

Physical map of rice genome — Rice_geno_map

A data frame with 1311 rows and 3 variables:<dl>
 <dt>marker</dt>
<dd>marker name for each marker, character</dd>

 <dt>chr</dt>
<dd>chromosome number for each marker, integer</dd>

 <dt>pos</dt>
<dd>physical position for each marker, integer, (b.p.)</dd>


</dl>

Rice_geno_map: Physical map of rice genome

Description

Arguments

Format

References