Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Yvone
    replied
    Originally posted by Rui View Post
    I am sorry to kick this thread alive but did someone figure out what "*" means in the reads base column? I cannot find any information on the homepage of Samtools.
    The deleted bases will be presented as ‘*’ in the following lines.

    Leave a comment:


  • Rui
    replied
    I am sorry to kick this thread alive but did someone figure out what "*" means in the reads base column? I cannot find any information on the homepage of Samtools.

    Leave a comment:


  • hanleng
    replied
    Originally posted by rnaseek View Post
    samtools manual says they are " ’>’ or ’<’ for a reference skip".

    http://samtools.sourceforge.net/samtools.shtml
    Thank u! This is really helpful!

    Leave a comment:


  • rnaseek
    replied
    samtools manual says they are " ’>’ or ’<’ for a reference skip".

    Leave a comment:


  • hanleng
    started a topic mpileup format

    mpileup format

    I am using samtools mpileup to analyze my data, and have several lines like this:

    chr1 14976 G 5 <<><> HHHHH
    chr1 14977 C 5 <<><> HHHHH
    chr1 14978 C 5 <<><> HHHHH
    chr1 14979 T 5 <<><> HHHHH
    chr1 14980 C 5 <<><> HHHHH
    chr1 14981 A 5 <<><> HHHHH
    chr1 14982 T 5 <<><> HHHHH
    chr1 14983 G 5 <<><> HHHHH
    chr1 14984 A 5 <<><> HHHHH


    What are those ">" "<" or "*" mean in the reads base column? According to the description of the format (http://samtools.sourceforge.net/pileup.shtml), they should be only in the base qualities columns.

Latest Articles

Collapse

  • seqadmin
    Current Approaches to Protein Sequencing
    by seqadmin


    Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...
    04-04-2024, 04:25 PM
  • 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

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 04-11-2024, 12:08 PM
0 responses
18 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-10-2024, 10:19 PM
0 responses
22 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-10-2024, 09:21 AM
0 responses
17 views
0 likes
Last Post seqadmin  
Started by seqadmin, 04-04-2024, 09:00 AM
0 responses
49 views
0 likes
Last Post seqadmin  
Working...
X