UGbS-flex is a versatile pipeline for the analysis of GBS data irrespective of a species' ploidy level, breeding system or availability of a reference genome sequence. Both single-end reads and paired-end reads can be used as input. The pipeline combines publicly available software with in-house python and perl scripts. All scripts are available for download from our website.
Scripts used in Genetic Mapping
In collaboration with Russell Malmberg, we have upgraded Lincoln and Lander's time-tested mapping program 'MAPMAKER' to run more efficiently in a Windows Command Prompt Environment. We have also developed scripts to semi-automate some of the most time-consuming steps in the MAPMAKER mapping process. The upgraded version of MAPMAKER and the mapping scripts are available for download from our website.