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Schematic representation of the pipeline steps involved in the bioinformatic analysis. BWA-MEM: Burrows-Wheeler Aligner with Maximal Exact Matches algorithm. BAM: Binary Alignment Map. GATK: Genome Analysis Toolkit. gVCF: genomic Variant Calling Format. SNVs: single-nucleotide variants. Indels: insertions and deletions. VCF: Variant Calling Format.
