Adapter Removal Tutorial

Welcome to the Adapter Removal tutorial

If you wish to follow the tutorial yourself, please download the files found here and follow the video tutorial.

Alternatively just watch the video below to get an idea of how to use the sRNA Workbench to trim adapters from your raw sequence data.

Trimming adapters from FASTQ data

Data used in the tutorial:

tomato.fasq

(found in the TutorialData download in: TutorialData/FASTQ)





Download Video:
Closed Format: “MP4”
Open Format: “OGG”

  • Kyriakos

    Hi

    i am new to the adapter removal tool of your software so i downloaded the tutorial data and watch the video from your website to learn how to use the tool. i followed the instructions of your video using the tomato.fastq data file but i keep getting an error saying that the output file must be a directory (/Users/kyriakos/Desktop/srna-workbenchV2.5.0/TutorialData/FASTQ/tomato_no_adap.fasta). I am using a mac 10.8. Can you please tell me what i am doing wrong?

    thank you
    Kyriakos

    • Hi,

      Yes the tutorials are a little out of date since the last release of the program. I changed several features and added some new features that deprecated the old interface. I will be creating a new tutorial after the Christmas break!

      Basically it is the same as before, however rather than supplying a new file to output to, you add a directory/folder name into the output box. This allows for removal of adapters from more than one file at a time (batch mode) see the release notes:
      http://srna-workbench.cmp.uea.ac.uk/the-uea-small-rna-workbench-version-2-5-0/

      For more details 🙂

      So to complete the tutorial, just make a folder anywhere on your file system (or even within the tutorial data folder) and select that as output.

      I hope this helps, please feel free to add further comment if you have any other questions

A suite of tools for analysing micro RNA and other small RNA data from High-Throughput Sequencing devices