Analysis Methods | Variant Calling | Starling (Isaac Variant Caller)

Starling (Isaac Variant Caller)

Starling identifies single nucleotide variants (SNVs) and small indels using the following steps:

▶ Read filtering—Filters out reads failing quality checks.
▶ Indel calling—Identifies a set of possible indel candidates and realigns all reads overlapping the candidates using a multiple sequence aligner.
▶ SNV calling—Computes the probability of each possible genotype given the aligned read data and a prior distribution of variation in the genome.
▶ Indel genotypes—Calls indel genotypes and assigns probabilities.
▶ Variant call output—Generates output in a VCF file and a compressed genome variant call (gVCF) file. See VCF File Format and Genome VCF Files.