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Trimmomatic: a flexible trimmer for Illumina sequence data
Oxford University Press | 2014|Publisher: Oxford University Press -
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
Oxford University Press | 2015|Publisher: Oxford University Press -
Prokka: rapid prokaryotic genome annotation
Oxford University Press | 2014|Publisher: Oxford University Press -
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
Free accessOxford University Press | 2013|Publisher: Oxford University Press -
MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
Oxford University Press | 2015|Publisher: Oxford University Press -
Roary: rapid large-scale prokaryote pan genome analysis
Oxford University Press | 2015|Publisher: Oxford University Press -
NCBI GEO: archive for functional genomics data sets--update
Free accessOxford University Press | 2013|Publisher: Oxford University Press -
UCHIME improves sensitivity and speed of chimera detection
Oxford University Press | 2011|Publisher: Oxford University Press -
The Sequence Alignment/Map format and SAMtools
Oxford University Press | 2009|Publisher: Oxford University Press -
LDlink: a web-based application for exploring population-specific haplotype structure and linking correlated alleles of possible functional variants
Oxford University Press | 2015|Publisher: Oxford University Press -
STAMP: statistical analysis of taxonomic and functional profiles
Oxford University Press | 2014|Publisher: Oxford University Press -
STRING v9.1: protein-protein interaction networks, with increased coverage and integration
Free accessOxford University Press | 2013|Publisher: Oxford University Press -
ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization
Oxford University Press | 2015|Publisher: Oxford University Press -
Bandage: interactive visualization of de novo genome assemblies
Oxford University Press | 2015|Publisher: Oxford University Press -
PROVEAN web server: a tool to predict the functional effect of amino acid substitutions and indels
Oxford University Press | 2015|Publisher: Oxford University Press -
Primer3--new capabilities and interfaces
Free accessOxford University Press | 2012|Publisher: Oxford University Press -
Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays
Oxford University Press | 2014|Publisher: Oxford University Press -
GOplot: an R package for visually combining expression data with functional analysis
Oxford University Press | 2015|Publisher: Oxford University Press -
Fast and accurate short read alignment with Burrows-Wheeler transform
Oxford University Press | 2009|Publisher: Oxford University Press -
KEGG for integration and interpretation of large-scale molecular data sets
Free accessOxford University Press | 2012|Publisher: Oxford University Press
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