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  • ab1 files batch printing

    Hi,
    I use FinchTV for printing the .ab1 files. FinchTV allows to print one file at time. It is time consuming when I have to print ~300 files. Is there any software that allows to print ab1 files automatically?

  • #2
    Convert to postscript, after that you can easily print in batches,

    Trace2PS and FSA2PS:
    two software toolkits for converting trace and fsa files to PostScript format
    Background Due to the advanced techniques in sequencing and fragment analysis, DNA sequencers and analyzers produce vast amounts of data within short time. To administrate the large data volume conveniently, efficient data management systems are used in order to process and to store sequencers' or analyzers' data outcome. The inclusion of graphical reports in such systems is necessary to achieve a comprehensive view of the integrated data. However, the resulting data of sequencing and fragment analysis runs are stored in a proprietary format, the so-called trace or fsa format, which is only readable by programs provided by the instrument's vendor operating on the machine itself or by commercial tools designed for editing the respective data. To allow for a quick conversion of the proprietary data format into a commonly used one, toolkits are required that reach this aim and can be easily integrated into workflow systems. Results We have developed the software toolkits Trace2PS and Fsa2PS which allow to convert sequence and fragment analysis raw data files to PostScript images, respectively. The toolkits are implemented as Perl modules that can be used as standalone command line applications in conjunction with a script-based analysis pipeline, or integrated in software applications for displaying the data content of trace and fsa files. The converter modules support the commonly used file formats for storage of sequencing (ABI and SCF) and fragment analysis data (FSA). Conclusion The software toolkits provide useful applications to convert sequencing and fragment analysis files from a proprietary into a more common, human-readable format. Trace2PS and FSA2PS are useful and capable in data management workflow systems like SAMS, or laboratory information systems that are used for displaying trace and fragment analysis results via web-based tools over an intranet or internet connection to users that can view their results directly on the screen.


    hth, Sven

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    • #3
      It works pretty well! Very thank you!

      Comment


      • #4
        Chromas 2.4 has an option for batch printing

        Comment


        • #5
          Why print them at all? Free tools like FinchTrace allow you to view the .ab1 file interactively. What possible benefit comes from wasting all that paper?

          --
          Phillip

          Comment


          • #6
            Originally posted by pmiguel View Post
            Why print them at all? Free tools like FinchTrace allow you to view the .ab1 file interactively. What possible benefit comes from wasting all that paper?

            --
            Phillip
            Well, the diagnostics team in my company needs it. They make some notes on it, "screen" it by eyes, and, suprisingly, they find mutations/changes that have not been found by any specialised program.

            Comment


            • #7
              Originally posted by thedamian View Post
              Well, the diagnostics team in my company needs it. They make some notes on it, "screen" it by eyes, and, suprisingly, they find mutations/changes that have not been found by any specialised program.
              Can't they just annotate a pdf of the chromat? I mean, it would not be worth it to implement such a change if this involved a few chromats at a time. But hundreds?

              Sounds like printing hundreds of them isn't common, since you are just asking this question now. So maybe it still isn't worth the effort to go electronic. Just seems crazy to me.

              At least your printouts are getting looked at. I just imagined this as some sort of pro forma process, with all the chromats being filed away in notebooks, never to be looked at.

              --
              Phillip

              Comment

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