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  • BWA - file formats

    Hello,

    I have some basic questions about BWA file formats:

    - Which are the file formats that Burrows-Wheeler Alignment Tool (BWA) admit as input?
    - Is ab1 admited?
    - How could I use BWA if my sequences are in ab1, or CTF(Staden Package) or SCF(Staden Package) format?

    Thanks a lot

  • #2
    Originally posted by robekubica View Post
    Hello,

    I have some basic questions about BWA file formats:

    - Which are the file formats that Burrows-Wheeler Alignment Tool (BWA) admit as input?
    - Is ab1 admited?
    - How could I use BWA if my sequences are in ab1, or CTF(Staden Package) or SCF(Staden Package) format?

    Thanks a lot
    I'm pretty sure bwa only takes fasta or fastq. You'll have to convert those other things to fasta, but that shouldn't be too hard.

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