Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • 454RunTimeMetricsAll.txt comprehension

    Hi,
    currently I am parsing some information from the 454RunTimeMetricsAll.txt.
    My problem is basicly to understand the layout of the file related to the actual system workflow of the 454.

    The file looks like:
    Code:
    region [1-8](
                     key(
                            sequence(...
                                    ... many accuracy values
                                    ...
                                    )
     
                            sequence(...
                                     ...
                                    )
                            )
    
                      key(...)
    
                      key(...)
    
                  )
    I need to know what are these regions, keys and sequences related to the "biology". Seems like my biology knowledge is not as good as my IT

    Thank you!

  • #2
    Regions: a 454 picotiterplate can be divided into 2, 4, 8 or 16 lanes = regions.
    key: the first four bases of each read indicate whether the read was from a sample bead, or a (spike-in) control bead (usually very few reads are control bead reads)
    sequence: for control beads only, metrics for each of the sequences in the control dataset (or for 'all' combined)

    The shortest set of metrics - usually for many more reads - are the real sample reads.

    So, not much biology... :-)

    Comment

    Latest Articles

    Collapse

    • seqadmin
      Genetic Variation in Immunogenetics and Antibody Diversity
      by seqadmin



      The field of immunogenetics explores how genetic variations influence immune responses and susceptibility to disease. In a recent SEQanswers webinar, Oscar Rodriguez, Ph.D., Postdoctoral Researcher at the University of Louisville, and Ruben Martínez Barricarte, Ph.D., Assistant Professor of Medicine at Vanderbilt University, shared recent advancements in immunogenetics. This article discusses their research on genetic variation in antibody loci, antibody production processes,...
      Yesterday, 07:24 PM
    • seqadmin
      Choosing Between NGS and qPCR
      by seqadmin



      Next-generation sequencing (NGS) and quantitative polymerase chain reaction (qPCR) are essential techniques for investigating the genome, transcriptome, and epigenome. In many cases, choosing the appropriate technique is straightforward, but in others, it can be more challenging to determine the most effective option. A simple distinction is that smaller, more focused projects are typically better suited for qPCR, while larger, more complex datasets benefit from NGS. However,...
      10-18-2024, 07:11 AM

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, 11-01-2024, 06:09 AM
    0 responses
    28 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 10-30-2024, 05:31 AM
    0 responses
    21 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 10-24-2024, 06:58 AM
    0 responses
    25 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 10-23-2024, 08:43 AM
    0 responses
    57 views
    0 likes
    Last Post seqadmin  
    Working...
    X