PANDAseq: paired-end assembler for illumina sequences. - Andre P. Masella; Andrea K. Bartram; Jakub Truszkowski; Daniel Gregory Brown; Josh D. Neufeld (BMC Bioinform., 2012)

BAMQL: a query language for extracting reads from BAM files. - Andre P. Masella; Christopher M. Lalansingh; Pragash Sivasundaram; Michael Fraser; Robert G. Bristow; Paul C. Boutros (BMC Bioinform., 2016)