output message for marker/sample missingness indicates the opposite of what's calculated

[jgrundstad]

Considering the documentation for the Sample and Marker Missingness modules (e.g. The missingness threshold (remove samples with more than x percent missing genotypes). [Default: 0.100]), the logged results appear to indicatethe opposite:

Number of samples with missing rate less or equal to 0.1 5 -5*

• in this case, "5" samples represents less than 0.7% of my cohort, which would appear accurate if these samples had missing rates more than or equal to 0.1.

Am I understanding this correctly? Thanks!

[lemieuxl]

The output message is indeed wrong. The text in the result description is correct, but the information in the summary results table should read:

Number of samples with missing rate higher than 0.1    5        -5

This represents the number of samples that were excluded from the dataset.