Publications
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MultiQC: summarize analysis results for multiple tools and samples in a single report
Abstract Motivation: Fast and accurate quality control is essential for studies involving next-generation sequencing data. Whilst numerous tools exist to quantify QC metrics, th...
KEGG: new perspectives on genomes, pathways, diseases and drugs
KEGG (http://www.kegg.jp/ or http://www.genome.jp/kegg/) is an encyclopedia of genes and genomes. Assigning functional meanings to genes and genomes both at the molecular and hi...
The UK Biobank resource with deep phenotyping and genomic data
Abstract The UK Biobank project is a prospective cohort study with deep genetic and phenotypic data collected on approximately 500,000 individuals from across the United Kingdom...
Application of Phylogenetic Networks in Evolutionary Studies
The evolutionary history of a set of taxa is usually represented by a phylogenetic tree, and this model has greatly facilitated the discussion and testing of hypotheses. However...
Structural Equation Modelling: Guidelines for Determining Model Fit
The following paper presents current thinking and research on fit indices for structural equation modelling. The paper presents a selection of fit indices that are widely regard...
ColabFold: making protein folding accessible to all
Abstract ColabFold offers accelerated prediction of protein structures and complexes by combining the fast homology search of MMseqs2 with AlphaFold2 or RoseTTAFold. ColabFold’s...
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms
Abstract DNA sequencing continues to decrease in cost with the Illumina HiSeq2000 generating up to 600 Gb of paired-end 100 base reads in a ten-day run. Here we present a protoc...