bioskills-dimensionality-reduction-plots

name	bioskills-dimensionality-reduction-plots
description	Choose and produce publication-quality 2D dimensionality-reduction plots (PCA, t-SNE, UMAP, PHATE) with deliberate hyperparameters and honest interpretation limits.
domain	single-cell
primary_tool	scanpy
methods	["scanpy","umap-learn","openTSNE","phate","sklearn","PCAtools","Rtsne","uwot","DESeq2"]
macro_tags	["dimensionality-reduction","visualization","pca","umap","tsne","phate","reproducibility"]
micro_tags	["scanpy","umap-learn","openTSNE","phate","sklearn","PCAtools","Rtsne","uwot","DESeq2","method-selection","normalization","scaling","pca","variance-explained","loadings","batch-diagnostic","tsne","perplexity","pca-initialization","umap","n-neighbors","min-dist","reproducibility","trajectory","diffusion","visualization","saving","dpi","interpretation"]
source	bioskills-dimensionality-reduction-plots
status	active
enabled	true

Bioskills Dimensionality Reduction Plots