Nature Communications · 2014 · 318 citations · 55 references
Life SciencesEvolutionary BiologyGeneticsGenome EvolutionGenomicsMolecular EvolutionAnimal GenomicsConservation GenomicsEvolutionFunctional Evolutionary GenomicsGenome SequencingPhylogenomic AnalysisEvolutionary Scenario ReconstructionGenome-wide PhylogeneticsWhole-genome Alignment
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The Sequence Alignment/Map format and SAMtools
Heng Li, Alec Wysoker, Tim Fennell et al. · Bioinformatics · 2009 · 67.5K citations · Full text
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li, Richard Durbin · Bioinformatics · 2009 · 62.8K citations · Full text
PAML 4: Phylogenetic Analysis by Maximum Likelihood
Molecular Biology and Evolution · 2007 · 14.8K citations · Full text