Consensus sequence generator (student project)

The objective of the consensus sequence generator was to develop a command-line tool that allows a user to extract for a sample on which NGS read data have been obtained and mapped to the reference genome, the exact sequence of a region given a start and stop position. We considered only diploid organisms, that can be heterozygous for variants, and short indels (reported in the vcf). Long indels will only be considered to be homozygous in the sample of interest.

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