Whole genome de novo assemblies of three divergent strains of rice, Oryza sativa , document novel gene space of aus and indica

BEDTools: a flexible suite of utilities for comparing genomic features

Aaron R. Quinlan, Ira M. Hall · Bioinformatics · 2010 · 30.4K citations · Full text

Life Sciences, Bioinformatics, Genetics +14

InterProScan 5: genome-scale protein function classification

Philip Jones, David Binns, Hsin-Yu Chang et al. · Bioinformatics · 2014 · 10K citations · Full text

Life Sciences, Bioinformatics, High-performance Computing +8

SOAPdenovo2: an empirically improved memory-efficient short-read <i>de novo</i> assembler

Ruibang Luo, Binghang Liu, Yinlong Xie et al. · GigaScience · 2012 · 5.6K citations · Full text

Life Sciences, Bioinformatics, Biology +17

Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data

Yoshihiro Kawahara, M. de la Bastide, John P. Hamilton et al. · Rice · 2013 · 2.5K citations · Full text

Life Sciences, Genetics, Plant Biology +17

MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects

Carson Holt, Mark Yandell · BMC Bioinformatics · 2011 · 2.3K citations · Full text

Life Sciences, Bioinformatics, Biology +17