Comparative metagenomics study reveals pollution induced changes of microbial genes in mangrove sediments

Fast gapped-read alignment with Bowtie 2

Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 58.3K citations · Full text

Long-read Sequencing, Sequence Assembly, Natural Sciences +7

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

Christian Quast, Elmar Pruesse, Pelin Yilmaz et al. · Nucleic Acids Research · 2012 · 32.2K citations · Full text

Ribosomal Rna, Genetics, Genomics +20

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

Anton Bankevich, Sergey Nurk, Dmitry Antipov et al. · Journal of Computational Biology · 2012 · 25.9K citations · Full text

Fast and sensitive protein alignment using DIAMOND

Benjamin Buchfink, Chao Xie, Daniel H. Huson · Nature Methods · 2014 · 14.1K citations

Structural Bioinformatics, Protein Folding, Sensitive Protein Alignment +7

Prodigal: prokaryotic gene recognition and translation initiation site identification

Doug Hyatt, Gwo-Liang Chen, Philip LoCascio et al. · BMC Bioinformatics · 2010 · 12.2K citations · Full text