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Hardcode depth
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percyfal committed Oct 23, 2023
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Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion docs/exercises/variant_filtering/index.qmd
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Expand Up @@ -340,7 +340,7 @@ LDEPTH_MEAN <- round(mean(data$MEAN_DEPTH), 1)

Note that `vcftools` treats uncalled sites as missing data, which is
why the number of sites differ between samples. The average coverage
over all samples is `r LDEPTH_MEAN`X. This is in the low range for a
over all samples is 7.9X. This is in the low range for a
protocol based on explicitly calling genotypes. At 5X coverage, there
may be a high probability that only one of the alleles has been
sampled [@nielsen_GenotypeSNPCalling_2011], whereby sequencing may be
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