Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • convert wig to bigwig

    I've used MACS and got one wig file per chromosome. I want to make a bigwig file and used the manual on ucsc http://genome.ucsc.edu/goldenPath/help/bigWig.html.
    1. Should I put the wig files together in one file by cat? and then use the bigwig program?
    2. I tried to follow exaple two and downloaded the wigglefile and the textfile and made the bigwigfile (mybigwig.bw) But I do not understand what to do in the next step (7). I understand this step as adding a line to the bigwigfile, but this is a binary file. So I don't get it.
    Thanks

  • #2
    Originally posted by khb View Post
    I've used MACS and got one wig file per chromosome. I want to make a bigwig file and used the manual on ucsc http://genome.ucsc.edu/goldenPath/help/bigWig.html.
    1. Should I put the wig files together in one file by cat? and then use the bigwig program?
    2. I tried to follow exaple two and downloaded the wigglefile and the textfile and made the bigwigfile (mybigwig.bw) But I do not understand what to do in the next step (7). I understand this step as adding a line to the bigwigfile, but this is a binary file. So I don't get it.
    Thanks
    you have to concatenate your wig files:

    Code:
    $ zcat *.wig.gz | wigToBigWig -clip stdin chromsizes.tab out.bw
    To visualize your bigwig track you have to place it in a location visible by http/ftp protocol and then make the genome browser aware of it by adding this text:

    Code:
    track type=bigWig bigDataUrl=http://URL/of/out.bw
    in the text field you get when you want to add a track.
    Unfortunately, if your bw file is not visible by the genome browser (i.e. you are behind a firewall) you won't be able to see it.
    d

    Comment

    Latest Articles

    Collapse

    • seqadmin
      Recent Advances in Sequencing Analysis Tools
      by seqadmin


      The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...
      Yesterday, 07:48 AM
    • seqadmin
      Essential Discoveries and Tools in Epitranscriptomics
      by seqadmin




      The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...
      04-22-2024, 07:01 AM

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, Today, 06:57 AM
    0 responses
    7 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, Yesterday, 07:17 AM
    0 responses
    13 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 05-02-2024, 08:06 AM
    0 responses
    19 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 04-30-2024, 12:17 PM
    0 responses
    21 views
    0 likes
    Last Post seqadmin  
    Working...
    X