Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Reptile error correction tool: fastq not readable

    Dear all!
    I've tried to use Reprile error correction tool ( http://aluru-sun.ece.iastate.edu/doku.php?id=reptile ) for my MiSeq reads, but unfortunately this soft cannot read my fastq file, despite this file was OK with FastQC and different assemblers. Do you know if there is any modification in fastq format in MiSeq versus other Illumina sequencers, since supposedly it was tested only on GA data? Is there any FastQ file converters?
    TIA
    Stepan

  • #2
    Originally posted by stepa_t View Post
    Dear all!
    I've tried to use Reprile error correction tool ( http://aluru-sun.ece.iastate.edu/doku.php?id=reptile ) for my MiSeq reads, but unfortunately this soft cannot read my fastq file, despite this file was OK with FastQC and different assemblers. Do you know if there is any modification in fastq format in MiSeq versus other Illumina sequencers, since supposedly it was tested only on GA data? Is there any FastQ file converters?
    TIA
    Stepan
    Does the documentation of Reptile say anything about compatibility with FastQ ?

    Can you post the result of this:

    $ head myFastqFile.fastq


    Maybe your reads are too long, who knows.

    Comment


    • #3
      Reptile comes with a program to turn fastq reads into a format it can read. Look at this tutorial for details.

      Comment

      Latest Articles

      Collapse

      • seqadmin
        Best Practices for Single-Cell Sequencing Analysis
        by seqadmin



        While isolating and preparing single cells for sequencing was historically the bottleneck, recent technological advancements have shifted the challenge to data analysis. This highlights the rapidly evolving nature of single-cell sequencing. The inherent complexity of single-cell analysis has intensified with the surge in data volume and the incorporation of diverse and more complex datasets. This article explores the challenges in analysis, examines common pitfalls, offers...
        06-06-2024, 07:15 AM
      • seqadmin
        Latest Developments in Precision Medicine
        by seqadmin



        Technological advances have led to drastic improvements in the field of precision medicine, enabling more personalized approaches to treatment. This article explores four leading groups that are overcoming many of the challenges of genomic profiling and precision medicine through their innovative platforms and technologies.

        Somatic Genomics
        “We have such a tremendous amount of genetic diversity that exists within each of us, and not just between us as individuals,”...
        05-24-2024, 01:16 PM

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by seqadmin, Yesterday, 07:24 AM
      0 responses
      11 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 06-13-2024, 08:58 AM
      0 responses
      11 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 06-12-2024, 02:20 PM
      0 responses
      16 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 06-07-2024, 06:58 AM
      0 responses
      184 views
      0 likes
      Last Post seqadmin  
      Working...
      X