Software

EMIRGE: Expectation-Maximization Iterative Reconstruction of Genes from the Environment

EMIRGE reconstructs full length ribosomal genes from short read sequencing data. In the process, it also provides estimates of the sequences’ abundances.

Miller CS, Baker BJ, Thomas BC, Singer SW, Banfield JF (2011) EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data. Genome biology 12: R44. doi:10.1186/gb-2011-12-5-r44.

Miller CS, Handley KM, Wrighton KC, Frischkorn KR, Thomas BC, Banfield JF (2013) Short-Read Assembly of Full-Length 16S Amplicons Reveals Bacterial Diversity in Subsurface Sediments. PloS one 8: e56018. doi:10.1371/journal.pone.0056018.