Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Removing an unknown primer sequence from reads.

    Hi,

    Could anyone help me learn how to remove an unknown primer sequence from the ends of reads. I have these primers attached to the DNA prior to making the Illumina libraries as i have used them for other reactions. This means that when the data is compiled i have a lot of data that is unmappable due to these primers.

    Any ideas?

    I have to admit...i'm no bioinformatician so could you keep your replies easy for me to understand please.

    Thanks in advance

  • #2
    We have develop a tool to clean different kind of sequences. It can remove adaptor sequences from solexa reads. We haven't write the documentation yet. You can take a look at the biolib project code.
    To clean the sequences we use the run_cleanning_pipeline.py script.
    If you're interested write me an email (jblanca _at_ btc.upv.es).

    Comment


    • #3
      Take a look at Figaro (http://sourceforge.net/apps/mediawik...p?title=Figaro).
      --
      Senthil Palanisami

      Comment

      Latest Articles

      Collapse

      • seqadmin
        Strategies for Sequencing Challenging Samples
        by seqadmin


        Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
        03-22-2024, 06:39 AM
      • seqadmin
        Techniques and Challenges in Conservation Genomics
        by seqadmin



        The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.

        Avian Conservation
        Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...
        03-08-2024, 10:41 AM

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by seqadmin, Yesterday, 06:37 PM
      0 responses
      8 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, Yesterday, 06:07 PM
      0 responses
      8 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 03-22-2024, 10:03 AM
      0 responses
      49 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 03-21-2024, 07:32 AM
      0 responses
      66 views
      0 likes
      Last Post seqadmin  
      Working...
      X