The most recent list can be found on on google scholar.
Ritornello: high fidelity control-free chromatin immunoprecipitation peak calling Journal Article
In: Nucleic Acids Research, vol. 45, no. 21, pp. e173–e173, 2017, ISSN: 0305-1048, (Publisher: Oxford Academic).
A permutations-based algorithm for fast alignment of long paired-end reads Technical Report
Yale CS no. YALEU/DCS/TR-1474, 2013.
A random-permutations-based approach to fast read alignment Journal Article
In: BMC Bioinformatics, vol. 14, no. 5, pp. S8, 2013, ISSN: 1471-2105.
Building approximate overlap graphs for DNA assembly using random-permutations-based search Technical Report
Yale CS no. YALEU/DCS/TR-1470, 2012.
Homopolymer Length Filters Technical Report
Yale CS no. YALEU/DCS/TR-1465, 2012.