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  • zee
    NGS specialist
    • Apr 2008
    • 249
    #1

    BS-Seq Public /Sharing Data

    Hi,

    Does anybody know of a source of public BS-Seq data to validate methylation alignment on?
    I'm looking for SEQ-PRB/FASTQ formatted short reads from the Illumina GA platform.

    I found the Cokus dataset at http://epigenomics.mcdb.ucla.edu/BS-Seq/download.html but I cant make head or tail of what's in there or how to get at the actual reads. Can anybody help?
    Last edited by zee; 01-21-2009, 12:47 AM.
    Tags: None
  • zee
    NGS specialist
    • Apr 2008
    • 249
    #2
    I decompressed the Cokus et al., 2008, data and obtained a whole lot of directories and C programs. I cant run the C programs because I dont have a license for Matlab.

    Anybody know what to do with these :

    N1try2-L7-sig2_T-17.littleEndianDoubles.bin
    N1try2-L7-sig2_T-18.littleEndianDoubles.bin
    N1try2-L7-sig2_T-19.littleEndianDoubles.bin
    N1try2-L7-sig2_T-20.littleEndianDoubles.bin
    N1try2-L7-sig2_T-21.littleEndianDoubles.bin
    N1try2-L7-sig2_T-22.littleEndianDoubles.bin
    N1try2-L7-sig2_T-23.littleEndianDoubles.bin
    N1try2-L7-sig2_T-24.littleEndianDoubles.bin
    N1try2-L7-sig2_T-25.littleEndianDoubles.bin
    N1try2-L7-sig2_T-26.littleEndianDoubles.bin
    N1try2-L7-sig2_T-27.littleEndianDoubles.bin
    N1try2-L7-sig2_T-28.littleEndianDoubles.bin
    N1try2-L7-sig2_T-29.littleEndianDoubles.bin
    N1try2-L7-sig2_T-30.littleEndianDoubles.bin
    N1try2-L7-sig2_T-31.littleEndianDoubles.bin
    N1try2-L7-sig2_T-32.littleEndianDoubles.bin
    N1try2-L7-sig2_T-33.littleEndianDoubles.bin
    N1try2-L7-sig2_T-34.littleEndianDoubles.bin
    N1try2-L7-sig2_T-35.littleEndianDoubles.bin
    N1try2-L7-sig2_T-36.littleEndianDoubles.bin


    Are these the raw images from the Illumina machine and how do I produce some reads from this?

    Comment

    • forrest
      Junior Member
      • Sep 2009
      • 2
      #3
      I don't how to convent these bin files to fastq/fasta file? Any one know how to do this? Thanks so much.

      Comment

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