Functional QTL mapping and prediction of 3D height measured from a robotic field scanalyzer in wheat

Description

We provided the raw phenotypic data (FA_data_raw.RData), and individual-TP BLUPs, B-spline bases, and the first functional PCs from the 5, 10, and 26 TPs (phenotypic_traits.RData). The rqtl package input files for scenarios R1, R5, and R9 are also provided (CSP_ph17_5t_R1, CSP_ph17_10t_R5, and CSP_ph17_R9). The additive genomic relationship matrix is available as VanRaden_matrixCSP.RData. The codes provided are (1) factor analytic model, (2) smoothing and dimensionality reduction, QTL scanning using (3) individual-TP and (4) functional mapping, (5) power simulations, genomic prediction (6) with and (7) without including covariates as fixed effects.

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