---
author: Sam White
toc-title: Contents
toc-depth: 5
toc-location: left
date: 2015-10-23 22:50:16+00:00
layout: post
slug: troubleshooting-oly-rad-seq
title: Troubleshooting - Oly RAD-seq
categories:
  - 2015
  - 2bRAD Library Tests for Sequencing at Genewiz
  - Olympia oyster reciprocal transplant
tags:
  - RAD
  - RAD-seq
  - troubleshooting
---


Oddly, it turns out that Katherine's version of the Meyer Lab 2bRAD protocol differed from what I had download. To add to the confusion, both protocols have the same file name. Here's what I'm talking about:

![](https://eagle.fish.washington.edu/Arabidopsis/20151023_2bRAD_protocol_conflict.jpg)(http://eagle.fish.washington.edu/Arabidopsis/20151023_2bRAD_protocol_conflict.jpg)



The file on the left is the one I was using and the one on the right is the file Katherine is using (NOTE: The file name's aren't exact because they were saved to the same directory and the numbers in the parentheses were appended to the file name automatically)

I've updated [our copy of the protocol in our GitHub account](https://github.com/sr320/LabDocs/blob/master/protocols/External_Protocols/2bRAD_11Aug2015.pdf). However, Katherine informed me that she's just been pulling up the Meyer Lab page to reference the protocol. So, it's possible they made a change to the file after I initially downloaded it, but the change wasn't indicated in the file name.

https://people.oregonstate.edu/~meyere/docs

However, when discussing with Katherine, she made a good point and said she just scaled up the test-scale PCR. Since the test-scale PCR was successful, she didn't see a need to make any changes.

Will try this procedure again with the correct protocol; probably by scaling up the test-scale PCR.
