org.bdgenomics.avocado

genotyping

package genotyping

Visibility
  1. Public
  2. All

Type Members

  1. case class DiscoveredVariant(contigName: String, start: Int, referenceAllele: String, alternateAllele: Option[String]) extends Product with Serializable

    A variant site and alleles.

Value Members

  1. object DiscoverVariants extends Serializable with Logging

    Discovers the variants present in a set of aligned reads.

  2. object JointAnnotatorCaller extends Serializable

    Jointly calls variants and computes variant annotations.

  3. object SquareOffReferenceModel

    Squares off a set of genotypes with reference models.

  4. object TrioCaller extends Serializable

    Variant caller for genotyping the offspring of two parents.

Ungrouped