Concepedia

Simulation-based comprehensive benchmarking of RNA-seq aligners

Giacomo Baruzzo, Katharina E. Hayer, Eun Ji Kim, Barbara Di Camillo, Garret A. FitzGerald, Gregory R. Grant

Nature Methods · 2016 · 307 citations · 22 references

DOIFull text

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References

22

The Sequence Alignment/Map format and SAMtools

Heng Li, Alec Wysoker, Tim Fennell et al. · Bioinformatics · 2009 · 67.5K citations · Full text

, , +17

STAR: ultrafast universal RNA-seq aligner

Alexander Dobin, Carrie Davis, Felix Schlesinger et al. · Bioinformatics · 2012 · 56.2K citations · Full text

, , +17

HISAT: a fast spliced aligner with low memory requirements

Daehwan Kim, Ben Langmead, Steven L. Salzberg · Nature Methods · 2015 · 26.1K citations · Full text

, , +3

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

Daehwan Kim, Geo Pertea, Cole Trapnell et al. · Genome biology · 2013 · 13.7K citations · Full text

, , +14

Genome sequence of the human malaria parasite Plasmodium falciparum

Malcolm J. Gardner, Neil Hall, Eula Fung et al. · Nature · 2002 · 4.5K citations · Full text

, , +13