Ten quick tips for effective dimensionality reduction

Uncovering pseudotemporal trajectories with covariates from single cell and bulk expression data

(2018) Kieran R Campbell et al.   Nature Communications

Pseudotime estimation: deconfounding single cell time series

(2016) John E. Reid et al.   BIOINFORMATICS

Dimension reduction techniques for the integrative analysis of multi-omics data

(2016) Chen Meng et al.   BRIEFINGS IN BIOINFORMATICS

Ten Simple Rules for Reproducible Computational Research

(2013) Geir Kjetil Sandve et al.   PLoS Computational Biology

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Detecting influential observations in Kernel PCA

(2009) Michiel Debruyne et al.   COMPUTATIONAL STATISTICS & DATA ANALYSIS

Horseshoes in multidimensional scaling and local kernel methods

(2008) Persi Diaconis et al.   Annals of Applied Statistics