get_variants

Get a two-dimensional marker matrix for all samples in the currently active 
variant set. This function is used as an alternative to the <code>get_variantset()</code> 
function when the server does not support it.
Note: This approach is significantly slower than <code>get_variantset</code> 
because it fetches data page by page through the BrAPI API, rather than 
downloading the full matrix in one Falpjack format file.

This R package assists breeders in linking data systems with their analytic pipelines,
a crucial step in digitizing breeding processes. It supports querying and retrieving
phenotypic and genotypic data from systems like 'EBS' <https://ebs.excellenceinbreeding.org/>,
'BMS' <https://bmspro.io>, 'BreedBase' <https://breedbase.org>,
'GIGWA' <https://github.com/SouthGreenPlatform/Gigwa2> (using 'BrAPI' <https://brapi.org> calls),
, and 'Germinate' <https://germinateplatform.github.io/get-germinate/>.
Extra helper functions support environmental data sources, including
'TerraClimate' <https://www.climatologylab.org/terraclimate.html> and 'FAO'
'HWSDv2' <https://gaez.fao.org/pages/hwsd> soil database.

Khaled Al-Shamaa

QBMS

Query the Breeding Management System(s)

Mariano Omar Crimi

Zakaria Kehel

Johan Aparicio

ICARDA 

get_variants function

Khaled Al-Shamaa (<a href="/link/k.el-shamaa%40cgiar.org?package=QBMS&version=2.0.0" data-mini-rdoc="QBMS::k.el-shamaa@cgiar.org">k.el-shamaa@cgiar.org</a>)

Author

Get Marker Matrix from the Selected Variant Set — get_variants

Khaled Al-Shamaa (<a href='mailto:k.el-shamaa@cgiar.org'>k.el-shamaa@cgiar.org</a>)

get_variants: Get Marker Matrix from the Selected Variant Set

Description

Usage

Arguments

Author

See Also