Home

This repository contains code for a number of analyses. Scripts are labelled with numbers to help keep things straight. Scripts with a 001 at the start of the filename belong to the analyses associated with Flanagan et al. (2016), my "popgen" analysis (see here for an overview of the analysis). Scripts with a 002 at the start of the filename belong to the submitted paper about freshwater adaptation (see here or here for an overview of the analysis). Finally, a third analysis has been started (but is not nearly complete) on another population genomics dataset, and the names of the scripts associated with that analysis are preceded by a 003.

References

Flanagan SP, Rose E, and Jones AG. 2016. Population genomics reveals multiple drivers of population differentiation in a sex-role-reversed pipefish. Molecular Ecology. 25(20): 5043-5072. doi: 10.1111/mec.13794

Flanagan SP, Rose E, and Jones AG. In review. Multiple invasions of freshwater by the Gulf pipefish reveal a shared genomic signature of adaptation. Molecular Ecology.