Interactive diagnostic report for principal components used in LRR
batch-effect correction. Hover over points for sample details.
Use the controls to change axes and colour overlays.
Scree Plot — Singular Values
Eigenvalues from the SVD of the centred LRR matrix.
The dashed red line marks the Marchenko–Pastur (MP) upper-edge
threshold; PCs to the left are considered significant.
Interactive PC Scatter (3-D)
UMAP Projection
2-D UMAP computed from the first PCs
(max of 3 and MP-selected k).
Pre vs Post-Correction LRR_SD Comparison
Scatter plot comparing pre-correction and post-correction LRR standard
deviation for each sample. Points on the unity line (y = x,
dashed grey) indicate no change; points below the line indicate
reduced noise after PC correction. Colour: blue = HQ,
red = LQ.
Bland–Altman Plot — LRR_SD Agreement
Bland–Altman plot showing the difference
(pre − post) vs the mean of pre and post LRR_SD per
sample. Horizontal lines mark the mean difference (blue) and
±1.96 SD limits of agreement (red dashed).