HgtSIM: a simulator for horizontal gene transfer (HGT) in microbial communities

metaSPAdes: a new versatile metagenomic assembler

(2017) Sergey Nurk et al.   GENOME RESEARCH

Detecting horizontal gene transfer by mapping sequencing reads across species boundaries

(2016) Kathrin Trappe et al.   BIOINFORMATICS

A comparison of tools for the simulation of genomic next-generation sequencing data

(2016) Merly Escalona et al.   NATURE REVIEWS GENETICS

MetaQUAST: evaluation of metagenome assemblies

(2015) Alla Mikheenko et al.   BIOINFORMATICS

Horizontal gene transfer: building the web of life

(2015) Shannon M. Soucy et al.   NATURE REVIEWS GENETICS

Detecting Horizontal Gene Transfer between Closely Related Taxa

(2015) Orit Adato et al.   PLoS Computational Biology

Inferring Horizontal Gene Transfer

(2015) Matt Ravenhall et al.   PLoS Computational Biology

MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities

(2015) Dongwan D. Kang et al.   PeerJ

HGTector: an automated method facilitating genome-wide discovery of putative horizontal gene transfers

(2014) Qiyun Zhu et al.   BMC GENOMICS

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

(2012) Y. Peng et al.   BIOINFORMATICS