Variant data

Variant data may be obtained either by importing variants from files (e.g. gvf or vcf files - ), by downloading variants from external databases (e.g. dbSNP, HapMap, 1000genomes or COSMIC ) or by calling variants on read tracks or read mappings using the CLC Probabilistic Variant Detection or the Quality-based Variant Detection tools. Variant types include SNVs, MNVs, insertions, deletions or replacements. They may be presented either in a variant track (see Figure 26.23) or in an annotated variant table (see Figure 26.26).