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sangeranalyzeR

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Launch sangeranalyzeR, an R package that provides fast, flexible, and reproducible workflows for assembling your Sanger sequencing data into contigs
  • Form Bench Walkthrough
  • Results Walkthrough

Form Bench Walkthrough

  1. Navigate to the sangeranalyzeR tab in the Form Bench launcher
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  2. To launch a sangeranalyzeR instance, you must provide the following fields. Default values (where provided) are suitable for most use-cases.
    1. Name: Provide a name for your instance.
    2. Input Folder: Provide the input folder containing your Sanger sequencing data
    3. Forward Read Suffix: Provide a regex query which will identify forward read files within the folder
    4. Reverse Read Suffix: Provide a regex query which will identify reverse read files within the folder
    5. Session Duration: Determine how long your session will run for.
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  3. When ready to begin, click Launch.

Results Walkthrough

  1. After pressing Launch, you’ll be prompted to wait a few minutes for the virtual machine to initialize. When ready, click on your instance in the Activity tab to launch your instance.
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  2. Further information about SangerAnalyzeR may be found in the documentation here.
sangeranalyseR

This package builds on sangerseqR to allow users to create contigs from collections of Sanger sequencing reads. It provides a wide range of options for a number of commonly-performed actions including read trimming, detecting secondary peaks, and detecting indels using a reference sequence. All parameters can be adjusted interactively either in R or in the associated Shiny applications. There is extensive online documentation, and the package can outputs detailed HTML reports, including chromatograms.

bioconductor.org

sangeranalyseR