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Table 1 Number of SNPs \(N_{SNP}\), heterozygosity H and relatedness R for the eight genomes (autosomes) from the Faroe Islands. \(N_{SNP}\), H and R were derived from the KING --bysample and --kinship methods, respectively (Additional files 1 and 5 for our basic and advanced filtering, respectively). We also compare R from kinship with \(R_{ROH>x}\) from ROHs (Methods, Additional files 2 and 6 for our basic and advanced filtering, respectively). The median and mean number of \(N_{SNP}\), H, R, \(R_{ROH>0.1}\) and \(R_{ROH>0.2}\) are shown for both filtering criteria used before further processing with PLINK and KING. The \(N_{SNP}\), H are shown for the eight individual and merged samples, and R, \(R_{ROH>x}\) are shown for the merged samples. For the basic filtering R is like \(R_{ROH>0.1}\) and for the advanced filtering R is like \(R_{ROH>0.2}\)

From: SNP heterozygosity, relatedness and inbreeding of whole genomes from the isolated population of the Faroe Islands

Parameter

med

iqr

mean

sd

samples

Filter

\(\boldsymbol Q\boldsymbol U\boldsymbol A\boldsymbol L\boldsymbol>\mathbf{30}\)  

\(N_{SNP}\)

3559354

17756

3552025

26065

individual

 

1136546

0

1136546

0

merged

H

0.600

0.004

0.597

0.010

individual

 

0.292

0.011

0.291

0.007

merged

R

0.515

0.016

0.524

0.042

merged

\(R_{ROH>0.1}\)

0.517

0.041

0.525

0.031

merged

\(R_{ROH>0.2}\)

0.475

0.040

0.483

0.031

merged

Filter

PASS,  \(\boldsymbol Q\boldsymbol U\boldsymbol A\boldsymbol L\boldsymbol>\mathbf{30}\boldsymbol,\boldsymbol\;\) \(\boldsymbol F\boldsymbol M\boldsymbol T\boldsymbol/\boldsymbol D\boldsymbol P\boldsymbol U\boldsymbol>\mathbf{10}\)  

\(N_{SNP}\)

3243489

15740

3234556

29368

individual

 

1002681

0

1002681

0

merged

H

0.607

0.004

0.605

0.010

individual

 

0.282

0.011

0.281

0.007

merged

R

0.481

0.017

0.491

0.045

merged

\(R_{ROH>0.1}\)

0.519

0.043

0.524

0.030

merged

\(R_{ROH>0.2}\)

0.485

0.044

0.491

0.031

merged