marker_info

A data frame which contains marker information of GBS markers found on wheat chromosome 3B. This data pairs with the markers found in "geno_mat" data file associated with the HaploCatcher package.

datasets

Used for predicting a genotype’s allelic state at a specific locus/QTL/gene. This is accomplished by using both a genotype matrix and a separate file which has categorizations about loci/QTL/genes of interest for the individuals in the genotypic matrix. A training population can be created from a panel of individuals who have been previously screened for specific loci/QTL/genes, and this previous screening could be summarized into a category. Using the categorization of individuals which have been genotyped using a genome wide marker platform, a model can be trained to predict what category (haplotype) an individual belongs in based on their genetic sequence in the region associated with the locus/QTL/gene. These trained models can then be used to predict the haplotype of a locus/QTL/gene for individuals which have been genotyped with a genome wide platform yet not genotyped for the specific locus/QTL/gene. This package is based off work done by Winn et al 2021. For more specific information on this method, refer to <doi:10.1007/s00122-022-04178-w>.

Zachary Winn

HaploCatcher

A Predictive Haplotyping Package

marker_info function

A data frame with 2271 rows and 3 columns:
<dl><dt>Marker</dt>
<dd>The designation of the markers which are found in the genotypic matrix</dd><dt>Chromosome</dt>
<dd>The chromosome where each marker resides</dd><dt>BP_Position</dt>
<dd>The position of each marker in basepairs</dd></dl>

Format

Model Gene Compendium Data Set — marker_info

A data frame with 2271 rows and 3 columns:
<dl>

<dt>Marker</dt>
<dd>The designation of the markers which are found in the genotypic matrix</dd>

<dt>Chromosome</dt>
<dd>The chromosome where each marker resides</dd>

<dt>BP_Position</dt>
<dd>The position of each marker in basepairs</dd>



</dl>

marker_info: Model Gene Compendium Data Set

Description

Usage

Arguments

Format

Examples