Unconfigured Ad

Collapse
X
 
  • Time
  • Show
Clear All
new posts
  • fireLog2
    Member
    • Jul 2013
    • 10

    #1

    Is it possible to run PfamScan direct on DNA sequence?

    Hello,
    is it possible to run a local installed Pfam prediction (PfamScan) direct on DNA sequence?

    There is a search field on the homepage to do so (http://pfam.sanger.ac.uk/search). But I couldn't get it to run on a local server with DNA. It seems that only protein sequence prediction works.

    Did I miss something?

    I don't want to translate it to all 6 reading frames
  • GenoMax
    Senior Member
    • Feb 2008
    • 7142

    #2
    This help FAQ seems to indicate so: http://pfam.sanger.ac.uk/help#tabview=tab3 Question 8 in the navigation box on right.

    You will need to install the wise2 package.ftp://ftp.ebi.ac.uk/pub/software/unix/wise2/

    Comment

    • fireLog2
      Member
      • Jul 2013
      • 10

      #3
      Thanks you for your fast answer!

      I will dig further... I think I already have wise2 installed. But I didn't know that this can be used.

      Comment

      Latest Articles

      Collapse

      • SEQadmin2
        16S/ITS Profiling vs. Shotgun Metagenomics: What Changes in Your Workflow?
        by SEQadmin2




        NGS has revolutionized clinical microbiology by offering new ways to identify and surveil pathogens without prior knowledge of the target. One popular approach is 16S rRNA and ITS amplicon sequencing, which targets specific microbial markers. But studies are increasingly incorporating shotgun metagenomics, a technique that sequences all DNA from a sample without targeting specific microbial markers. This approach allows more detailed taxonomic classification, detection...
        Today, 06:46 AM
      • SEQadmin2
        Multiomic Liquid Biopsy: What DNA/RNA Panels Reveal That DNA Alone Can’t
        by SEQadmin2



        Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?

        Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating
        ...
        10-14-2026, 09:55 AM

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by SEQadmin2, 10-28-2026, 09:57 AM
      0 responses
      24 views
      0 reactions
      Last Post SEQadmin2  
      Started by SEQadmin2, 10-28-2026, 09:51 AM
      0 responses
      15 views
      0 reactions
      Last Post SEQadmin2  
      Started by SEQadmin2, 10-22-2026, 11:13 AM
      0 responses
      68 views
      0 reactions
      Last Post SEQadmin2  
      Started by SEQadmin2, 10-22-2026, 10:48 AM
      0 responses
      48 views
      0 reactions
      Last Post SEQadmin2  
      Working...