---
author: Sam White
toc-title: Contents
toc-depth: 5
toc-location: left
date: 2015-04-16 05:13:36+00:00
layout: post
slug: quality-trimming-lsu-c-virginica-oil-spill-mbd-bs-seq-data
title: Quality Trimming - LSU C.virginica Oil Spill MBD BS-Seq Data
categories:
  - 2015
  - LSU C.virginica Oil Spill MBD BS Sequencing
tags:
  - BS-seq
  - Crassostrea virginica
  - Eastern oyster
  - FASTQC
  - ipython notebook
  - jupyter notebook
  - MBD-Seq
  - NGS sequencing
  - oil
  - Trimmomatic
---

Jupyter (IPython) Notebook: [20150414_C_virginica_LSU_Oil_Spill_Trimmomatic_FASTQC.ipynb](https://eagle.fish.washington.edu/Arabidopsis/iPythonNotebooks/20150414_C_virginica_LSU_Oil_Spill_Trimmomatic_FASTQC.ipynb)

NBviewer: [20150414_C_virginica_LSU_Oil_Spill_Trimmomatic_FASTQC.ipynb](https://nbviewer.ipython.org/url/eagle.fish.washington.edu/Arabidopsis/iPythonNotebooks/20150414_C_virginica_LSU_Oil_Spill_Trimmomatic_FASTQC.ipynb)

<iframe src="https://nbviewer.ipython.org/url/eagle.fish.washington.edu/Arabidopsis/iPythonNotebooks/20150414_C_virginica_LSU_Oil_Spill_Trimmomatic_FASTQC.ipynb" width="100%" height="1000" scrolling="yes"></iframe>



### Trimmed FASTQC





#### NB3 No oil Index - ACAGTG



[20150414_trimmed_2112_lane1_ACAGTG_L001_R1_001_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_ACAGTG_L001_R1_001_fastqc.html)
[20150414_trimmed_2112_lane1_ACAGTG_L001_R1_002_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_ACAGTG_L001_R1_002_fastqc.html)



#### 





#### NB6 No oil Index - GCCAAT



[20150414_trimmed_2112_lane1_GCCAAT_L001_R1_001_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_GCCAAT_L001_R1_001_fastqc.html)
[20150414_trimmed_2112_lane1_GCCAAT_L001_R1_002_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_GCCAAT_L001_R1_002_fastqc.html)



#### 





#### NB11 No oil Index - CAGATC



[20150414_trimmed_2112_lane1_CAGATC_L001_R1_001_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_CAGATC_L001_R1_001_fastqc.html)
[20150414_trimmed_2112_lane1_CAGATC_L001_R1_002_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_CAGATC_L001_R1_002_fastqc.html)
[20150414_trimmed_2112_lane1_CAGATC_L001_R1_003_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_CAGATC_L001_R1_003_fastqc.html)



#### 





#### HB2 25,000ppm oil Index - ATCACG



[20150414_trimmed_2112_lane1_ATCACG_L001_R1_001_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_ATCACG_L001_R1_001_fastqc.html)
[20150414_trimmed_2112_lane1_ATCACG_L001_R1_002_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_ATCACG_L001_R1_002_fastqc.html)
[20150414_trimmed_2112_lane1_ATCACG_L001_R1_003_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_ATCACG_L001_R1_003_fastqc.html)



#### 





#### HB16 25,000ppm oil Index - TTAGGC



[20150414_trimmed_2112_lane1_TTAGGC_L001_R1_001_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_TTAGGC_L001_R1_001_fastqc.html)
[20150414_trimmed_2112_lane1_TTAGGC_L001_R1_002_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_TTAGGC_L001_R1_002_fastqc.html)



#### 





#### HB30 25,000ppm oil Index - TGACCA



[20150414_trimmed_2112_lane1_TGACCA_L001_R1_001_fastqc.html](https://eagle.fish.washington.edu/Arabidopsis/20150414_trimmed_2112_lane1_TGACCA_L001_R1_001_fastqc.html)
