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Old 01-27-2017, 04:42 PM   #2
nucacidhunter
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Location: Iran

Join Date: Jan 2013
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For RAD-Seq and related techniques average fragment length around 10Kb is sufficient. The important quality factor is lack of restriction enzyme inhibitors. You can use a commercial kit (preferably column based) or follow literature such as following:
http://www.tandfonline.com/doi/pdf/1....2015.11513205

Most (maybe all) of current RAD-Seq data analysis software have been developed for processing diploid genomes so you should be aware of the data analysis challenge with polyploid species. This will vary depending on downstream applications such as population studies or mapping.
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