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Genome Analysis Toolkit

Variant Discovery in High-Throughput Sequencing Data

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Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. Learn more

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  3. 4.2.2.0

4.2.2.0

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Tool documentation for GATK release 4.2.2.0

  • VcfToIntervalList (Picard)
    This tool creates a Picard Interval List from a VCF or BCF. It ...
  • ViewSam (Picard)
    Very simple command that just reads a SAM or BAM file andwrites...
  • WellformedReadFilter
    Keep only reads that are well-formed Category Read Fil...
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