Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Data txt file

    Hi All,

    I want to ask a very basic question concerning the input file format for Tophat and Cufflinks.

    My data file is txt file and Fastq format. But where I should start for using Tophat, should I just upload the txt file?

    Thanks in advance!

    Wei
    Last edited by Wei-HD; 01-21-2010, 04:20 AM.

  • #2
    Fastq format is ok for tophat. Refer to the tophat manual. Cufflinks uses the output of tophat as input.
    Xi Wang

    Comment


    • #3
      Thanks Xi!
      I read the manual, the test_data has .fq suffix, could I use .txt file directly?

      Comment


      • #4
        Usually, yes. If it complains, just rename the file and rerun.
        -Jonathan

        Comment

        Latest Articles

        Collapse

        • seqadmin
          Exploring the Dynamics of the Tumor Microenvironment
          by seqadmin




          The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...
          07-08-2024, 03:19 PM
        • seqadmin
          Exploring Human Diversity Through Large-Scale Omics
          by seqadmin


          In 2003, researchers from the Human Genome Project (HGP) announced the most comprehensive genome to date1. Although the genome wasn’t fully completed until nearly 20 years later2, numerous large-scale projects, such as the International HapMap Project and 1000 Genomes Project, continued the HGP's work, capturing extensive variation and genomic diversity within humans. Recently, newer initiatives have significantly increased in scale and expanded beyond genomics, offering a more detailed...
          06-25-2024, 06:43 AM

        ad_right_rmr

        Collapse

        News

        Collapse

        Topics Statistics Last Post
        Started by seqadmin, Yesterday, 11:09 AM
        0 responses
        18 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 07-19-2024, 07:20 AM
        0 responses
        148 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 07-16-2024, 05:49 AM
        0 responses
        125 views
        0 likes
        Last Post seqadmin  
        Started by seqadmin, 07-15-2024, 06:53 AM
        0 responses
        111 views
        0 likes
        Last Post seqadmin  
        Working...
        X