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  • how to do alignment for SOLiD data

    hello all:
    I will analysis the SOLiD sequence data ,but I don't know how to do alignment for these data.I konw bwa can do this ,but I don't konw how.
    Anybody can tell me?
    Thank you very much.

    my data is .fq files, like this :
    @SRR010454.1 VAB_Solid0100_20080703_1_Pilot2_YRI_Fragment_A_library13
    T30030220303311000032221122100210000
    +
    !&+5,)%)9++'.//1$#;70)4+&)(%.6/(%<&2

  • #2
    Please do not post your question in multiple places. Also try searching the forums for your answer before posting.

    Comment


    • #3
      Originally posted by nilshomer View Post
      Please do not post your question in multiple places. Also try searching the forums for your answer before posting.
      Sorry! I'm a rookie here.

      Comment


      • #4
        Originally posted by bobo xin View Post
        hello all:
        I will analysis the SOLiD sequence data ,but I don't know how to do alignment for these data.I konw bwa can do this ,but I don't konw how.
        Anybody can tell me?
        Thank you very much.

        my data is .fq files, like this :
        @SRR010454.1 VAB_Solid0100_20080703_1_Pilot2_YRI_Fragment_A_library13
        T30030220303311000032221122100210000
        +
        !&+5,)%)9++'.//1$#;70)4+&)(%.6/(%<&2
        Almost all alignment programs will work, but you have to use the programs in color space. If you do not understand color space, here is my introduction on how color space works (http://www.homolog.us/blogs/?p=27), but that is not the definitive document and you can find many others. On the sidebar of above link, I have a link for 'solid software tools' from ABI. That is the best place for you to start.
        http://homolog.us

        Comment

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