PIPEBAR and OverlapPER: tools for a fast and accurate DNA barcoding analysis and paired-end assembly

DNA Barcode Authentication and Library Development for the Wood of Six Commercial Pterocarpus Species: the Critical Role of Xylarium Specimens

(2018) Lichao Jiao et al.   Scientific Reports

BBMerge – Accurate paired shotgun read merging via overlap

(2017) Brian Bushnell et al.   PLoS One

Natural history of the narrow endemics Ipomoea cavalcantei and I. marabaensis from Amazon Canga savannahs

(2017) Elena Babiychuk et al.   Scientific Reports

ClinQC: a tool for quality control and cleaning of Sanger and NGS data in clinical research

(2016) Ram Vinay Pandey et al.   BMC BIOINFORMATICS

Evolutionary histories determine DNA barcoding success in vascular plants: seven case studies using intraspecific broad sampling of closely related species

(2016) Sofia Caetano Wyler et al.   BMC EVOLUTIONARY BIOLOGY

Calibrating the taxonomy of a megadiverse insect family: 3000 DNA barcodes from geometrid type specimens (Lepidoptera, Geometridae)

(2016) Axel Hausmann et al.   GENOME

leeHom: adaptor trimming and merging for Illumina sequencing reads

(2014) Gabriel Renaud et al.   NUCLEIC ACIDS RESEARCH

PEAR: a fast and accurate Illumina Paired-End reAd mergeR

(2013) J. Zhang et al.   BIOINFORMATICS

COPE: an accurate k-mer-based pair-end reads connection tool to facilitate genome assembly

(2012) B. Liu et al.   BIOINFORMATICS

PANDAseq: paired-end assembler for illumina sequences

(2012) Andre P Masella et al.   BMC BIOINFORMATICS

Spider: An R package for the analysis of species identity and evolution, with particular reference to DNA barcoding

(2012) SAMUEL D. J. BROWN et al.   Molecular Ecology Resources

ART: a next-generation sequencing read simulator

(2011) Weichun Huang et al.   BIOINFORMATICS

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Choosing and Using a Plant DNA Barcode

(2011) Peter M. Hollingsworth et al.   PLoS One

DNA barcoding: a six-question tour to improve users' awareness about the method

(2010) M. Casiraghi et al.   BRIEFINGS IN BIOINFORMATICS

Validation of the ITS2 Region as a Novel DNA Barcode for Identifying Medicinal Plant Species

(2010) Shilin Chen et al.   PLoS One

Biodiversity informatics: automated approaches for documenting global biodiversity patterns and processes

(2009) R. Guralnick et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Selecting barcoding loci for plants: evaluation of seven candidate loci with species-level sampling in three divergent groups of land plants

(2009) MICHELLE L. HOLLINGSWORTH et al.   Molecular Ecology Resources

Multiple Multilocus DNA Barcodes from the Plastid Genome Discriminate Plant Species Equally Well

(2008) Aron J. Fazekas et al.   PLoS One