The Science of The Total Environment · 2021 · 54 citations · 75 references
Life SciencesMicrobiologySoil SciencesMicrobial EcologyMicrobial GeneticsSoil MicrobiologyAntimicrobial Resistance GenomicsEnvironmental Microbial GenomicsEnvironmental MicrobiomesMicrobiome DiversitySoil Microbial GeneticsSoil Microbial PhysiologyMicrobial Resistance GenesSoil Microbial GenomicsSoil Microbiome DiversitySoil Microbiome GenomicsSoil Microbiomes
75
Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony Bolger, Marc Lohse, Björn Usadel · Bioinformatics · 2014 · 69.7K citations · Full text
Fast gapped-read alignment with Bowtie 2
Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 61.1K citations
Prokka: rapid prokaryotic genome annotation
Torsten Seemann · Bioinformatics · 2014 · 19.6K citations
Minimap2: pairwise alignment for nucleotide sequences
Heng Li · Bioinformatics · 2018 · 16.8K citations · Full text