Bernie robot operation guide

Bernie can perform two types of protocols out of the box: single-stage DNA purification and two-stage DNA purification. The first one intent to remove any small molecule impurities and short DNA, such as primers. The protocol will cut off only shorter DNA strands. The second one, the two-stage purification, will remove both shorter-than-needed and longer-than-needed DNA strands, keeping only medium-sized DNA according to the margin you specify.

To run any of the protocols, please open the Anaconda prompt and go to the local bernielib directory. There, find the samplesheet.csv or samplesheet_2stage.csv files. The first one is pre-designed for single-stage purification, the second one is for two-stage purification. Modify the files according to your needs and save them. It is a good idea to save the file under a different name.

In the Anaconda prompt, type the command:

python purify.py samplesheet.csv

Replace samplesheet.csv with your file name.

The robot will start the purification.

If you are running the robot for the first time, it is a good idea to do the first run with just water instead of your real samples.