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DNA sample contamination (or sample swap) is quite common in sequencing studies. It is possible to detect DNA contamination from sequence reads of intensity data from SNP genotyping arrays by modeling the likelihood of sequence reads as a mixture of two samples and estimating the fraction of reads contributed by contaminating samples.
DNA sample contamination (or sample swap) is quite common in sequencing studies. It is possible to detect DNA contamination from sequence reads of intensity data from SNP genotyping arrays by modeling the likelihood of sequence reads as a mixture of two samples and estimating the fraction of reads contributed by contaminating samples.
Depending on the types of available data, we can detect contamination in the following ways.
Depending on the types of available data, one can detect DNA sample contamination in the following ways.
# When a sequenced sample has also external array-based genotypes available
# When a sequenced sample has also external array-based genotypes available
