aTRAM - automated target restricted assembly method: a fast method for assembling loci across divergent taxa from next-generation sequencing data

Capturing protein-coding genes across highly divergent species

(2016) Chenhong Li et al.   BIOTECHNIQUES

Rates of genomic divergence in humans, chimpanzees and their lice

(2014) K. P. Johnson et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

PRICE: Software for the Targeted Assembly of Components of (Meta) Genomic Sequence Data

(2013) J. Graham Ruby et al.   G3-Genes Genomes Genetics

Ultra-barcoding in cacao (Theobroma spp.; Malvaceae) using whole chloroplast genomes and nuclear ribosomal DNA

(2012) Nolan Kane et al.   AMERICAN JOURNAL OF BOTANY

Mapsembler, targeted and micro assembly of large NGS datasets on a desktop computer

(2012) Pierre Peterlongo et al.   BMC BIOINFORMATICS

Next-generation phylogenomics using a Target Restricted Assembly Method

(2012) Kevin P. Johnson et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Quake: quality-aware detection and correction of sequencing errors

(2012) David R Kelley et al.   GENOME BIOLOGY

Multiple lineages of lice pass through the K-Pg boundary

(2011) V. S. Smith et al.   Biology Letters

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Targeted Assembly of Short Sequence Reads

(2011) René L. Warren et al.   PLoS One

Local De Novo Assembly of RAD Paired-End Contigs Using Short Sequencing Reads

(2011) Paul D. Etter et al.   PLoS One

PE-Assembler: de novo assembler using short paired-end reads

(2010) Pramila Nuwantha Ariyaratne et al.   BIOINFORMATICS

Evolutionary history of mammalian sucking lice (Phthiraptera: Anoplura)

(2010) Jessica E Light et al.   BMC EVOLUTIONARY BIOLOGY

OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011

(2010) Robert M. Waterhouse et al.   NUCLEIC ACIDS RESEARCH

A consistency-based consensus algorithm for de novo and reference-guided sequence assembly of short reads

(2009) T. Rausch et al.   BIOINFORMATICS

Crystallizing short-read assemblies around seeds

(2009) Mohammad Hossain et al.   BMC BIOINFORMATICS

ABySS: A parallel assembler for short read sequence data

(2009) J. T. Simpson et al.   GENOME RESEARCH

Sequencing technologies — the next generation

(2009) Michael L. Metzker   NATURE REVIEWS GENETICS

MapReduce

(2008) Jeffrey Dean et al.   COMMUNICATIONS OF THE ACM