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  • Anyone has experience with .ylf (young lab format) files ?

    Hello guys,

    I am interested in viewing the ChIP-Seq results published in GSM722170. Apart from downloading the SRA and realigning the reads (which I would like to avoid of course), there is a .ylf file for download.

    It is a text file with numbers, which could possibly represent chromosomal positions (although quite many occur multiple times). But I don't have any idea, how to easily awk this into a bed file. The website of the Young lab also does not offer any converter for download.

    Therfore: Has anyone ever worked with .ylf files and could possibly recommend me a way how to convert them into a more common format ?

    Best regards
    Matthias

  • #2
    I contacted the depositing scientists and recieved this answer, which I would like to post here in case someone else ever has the same problem:

    The YLF files contain the 5' position of mapped reads. Unfortunately, we have retired the computational pipeline that uses .ylf files and do not have any converter code. [...]. SRA files should allow read mapping and downstream analysis. Thanks for your interest in our data.

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    • #3
      thanks man...googling led me here! ...just the question i was seeking

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