sample_data_wheat_custom

A dataset containing sample data related to genetic markers and associated traits.

datasets

Facilitates the post-Genome Wide Association Studies (GWAS) and Quantitative Trait Loci (QTL) analysis of identifying candidate genes within user-defined search window, based on the identified Single Nucleotide Polymorphisms (SNPs) as given by Mazumder AK (2024) <doi:10.1038/s41598-024-66903-3>. It supports candidate gene analysis for wheat and rice. Just import your GWAS result as explained in the sample_data file and the function does all the manual search and retrieve candidate genes for you, while exporting the results into ready-to-use output.

Rajamani Nirmalaruban

geneNR

Automated Gene Identification for Post-GWAS and QTL Analysis

R. Suvitha

Rajbir Yadav

Meda Alekya

Amit Kumar Mazumder

Subramani Sugumar

Prashanth babu

Manjeet Kumar

Kiran B Gaikwad

Naresh Kumar Bainsla

S. Bhaskar Reddy

sample_data_wheat_custom function

A data frame with columns:<dl>
<dt>traits</dt>
<dd>Associated traits, character.</dd><dt>SNP</dt>
<dd>SNP identifier, character.</dd><dt>Chr</dt>
<dd>Chromosome location, character.</dd><dt>start</dt>
<dd>Position on the chromosome where search window starts, numeric.</dd><dt>stop</dt>
<dd>Position on the chromosome where search window stops, numeric.</dd></dl>

Format

Sample Data — sample_data_wheat_custom

A data frame with columns:<dl>
<dt>traits</dt>
<dd>Associated traits, character.</dd>

<dt>SNP</dt>
<dd>SNP identifier, character.</dd>

<dt>Chr</dt>
<dd>Chromosome location, character.</dd>

<dt>start</dt>
<dd>Position on the chromosome where search window starts, numeric.</dd>

<dt>stop</dt>
<dd>Position on the chromosome where search window stops, numeric.</dd>



</dl>

Sample Data

sample_data_wheat_custom: Sample Data

Description

Usage

Arguments

Format

Examples