Unconfigured Ad

Collapse
X
 
  • Time
  • Show
Clear All
new posts
  • glados
    Member
    • Mar 2012
    • 59

    #1

    cummeRbund PCA plot

    Can anyone explain cummeRbund's PCA plot?
    I posted this question earleir in the RNA-sequencing forum but never got any replies so will try here in the Bioinformatics forum.

    I do understand traditional PCA plots, like the one in DESeq, and cummeRbund's MDS plot, but what does everything in cummeRbund's PCA version mean? What are the dots (PCA loading factors or expression values?), and what are the arrows? (There is no explanation in the manual)
  • TiborNagy
    Senior Member
    • Mar 2010
    • 329

    #2
    Dots are expression values transformed into PC. The arrows show how depends the given condition to the PC (you can see axes rotations.)

    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,...
      10-30-2026, 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, Today, 07:59 AM
    0 responses
    13 views
    0 reactions
    Last Post SEQadmin2  
    Started by SEQadmin2, 11-05-2026, 09:25 AM
    0 responses
    32 views
    0 reactions
    Last Post SEQadmin2  
    Started by SEQadmin2, 11-03-2026, 11:54 AM
    0 responses
    45 views
    0 reactions
    Last Post SEQadmin2  
    Started by SEQadmin2, 10-28-2026, 09:57 AM
    0 responses
    170 views
    0 reactions
    Last Post SEQadmin2  
    Working...