Code for newer papers can be found on my github page. For older papers, please contact me. You can also find direct links to code for specific papers on the "Publications/CV" page of this website.
Below are a number of protocols I've used, modified, and tried to write up in a clear manner. Feel free to contact me with any questions.
RNA extractions for copepods snap frozen in water:
DNA Extraction
BestRAD library prep
Some quick gel protocols
Below are a number of protocols I've used, modified, and tried to write up in a clear manner. Feel free to contact me with any questions.
RNA extractions for copepods snap frozen in water:
- link to come
DNA Extraction
- A dirt cheap DNA extraction. About $0.70/sample. Gives great yield, high MW, and only takes ~2 hours (after digestion). I've never had this fail, but have only ever tested it with fin clips or whole fry.
- Link to protocol
- Link to reagent recipes
BestRAD library prep
- This is modified from a protocol developed by Mike Miller's lab at UCD.
- Ali, Omar A., et al. "RAD capture (Rapture): flexible and efficient sequence-based genotyping." Genetics 202.2 (2016): 389-400.
- There have been a number of iterations of this protocol. If the link below seems out of date, I probably have a newer one that might be a bit more thorough.
- Link to protocol
- Link to the NEB kit protocol required to finish the prep
Some quick gel protocols