Unconfigured Ad

Collapse
X
 
  • Time
  • Show
Clear All
new posts
  • vani s kulkarni
    Member
    • Jun 2009
    • 11

    #1

    velvet and SOAPdenovo assembly

    hi
    I have used the velvet and SOAPdenovo for my solexa reads.
    Can any one explain how can I compare cotig from both results?
    I have used the same k-mer in both case.

    And

    I know that people use R for looking at the good contigs (by plotting with k-mer and other parameters), how to do that to judge K-mer or hashlength?

    Thanks
  • bioinfosm
    Senior Member
    • Jan 2008
    • 483

    #2
    For starters you may look at number of contigs, n50, how they map to a close by organism, or what do the contigs map to ...
    --
    bioinfosm

    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
    22 views
    0 reactions
    Last Post SEQadmin2  
    Started by SEQadmin2, 10-28-2026, 09:51 AM
    0 responses
    14 views
    0 reactions
    Last Post SEQadmin2  
    Started by SEQadmin2, 10-22-2026, 11:13 AM
    0 responses
    67 views
    0 reactions
    Last Post SEQadmin2  
    Started by SEQadmin2, 10-22-2026, 10:48 AM
    0 responses
    47 views
    0 reactions
    Last Post SEQadmin2  
    Working...