ped files test

inst/extdata/pop_a_ped_plink.log

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+PLINK v1.90b7.2 64-bit (11 Dec 2023)
+Options in effect:
+  --bfile C:/Users/eviec/Git/tidypopgen/inst/extdata/pop_a
+  --out C:/Users/eviec/Git/tidypopgen/inst/extdata/pop_a_ped_plink
+  --recode
+
+Hostname: LAPTOP-S7R1KB1T
+Working directory: C:\Users\eviec\OneDrive\Desktop\PhD\tidypopgen\ped_check
+Start time: Fri May 10 06:29:41 2024
+
+Random number seed: 1715318981
+8080 MB RAM detected; reserving 4040 MB for main workspace.
+16 variants loaded from .bim file.
+5 people (5 males, 0 females) loaded from .fam.
+Using 1 thread (no multithreaded calculations invoked).
+Before main variant filters, 5 founders and 0 nonfounders present.
+Calculating allele frequencies... done.
+Total genotyping rate is exactly 1.
+16 variants and 5 people pass filters and QC.
+Note: No phenotypes present.
+--recode ped to C:/Users/eviec/Git/tidypopgen/inst/extdata/pop_a_ped_plink.ped
++ C:/Users/eviec/Git/tidypopgen/inst/extdata/pop_a_ped_plink.map ... done.
+
+End time: Fri May 10 06:29:41 2024

inst/extdata/pop_a_ped_plink.map

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+1	rs4477212	0	82154
+1	rs3094315	0	752566
+1	rs3131972	0	752721
+1	rs12124819	0	776546
+1	rs11240777	0	798959
+1	rs1110052	0	873558
+1	rs9697457	0	934345
+1	rs6657048	0	957640
+1	rs2488991	0	994391
+1	rs307354	0	1264539
+1	rs1240719	0	1346905
+2	rs2862633	0	61974443
+2	rs28569024	0	139008811
+2	rs10106770	0	235832763
+3	rs11942835	0	155913651
+23	rs5945676	0	51433071

inst/extdata/pop_a_ped_plink.ped

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+pop_a GRC14300079 0 0 1 -9 A A A A G G A A G G T G G G C C T T C C T T G G T T A G T T T T
+pop_a GRC14300142 0 0 1 -9 A A A A G G A A G G G G G G C C T T G C A T G G T T G G C T T T
+pop_a GRC14300159 0 0 1 -9 A A G A A G A A A A T G G G C C T T C C T T G G T T A G T T T T
+pop_a GRC14300286 0 0 1 -9 A A A A G G A A G G G G G G C C T T G C T T G G T T A G C T T T
+pop_a GRC14300305 0 0 1 -9 A A A A A G A A A G T T G G C C T T C C T T G G T T A G T T T T

inst/extdata/pop_a_ped_tidypopgen.map

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+1 rs4477212 0 82154
+1 rs3094315 0 752566
+1 rs3131972 0 752721
+1 rs12124819 0 776546
+1 rs11240777 0 798959
+1 rs1110052 0 873558
+1 rs9697457 0 934345
+1 rs6657048 0 957640
+1 rs2488991 0 994391
+1 rs307354 0 1264539
+1 rs1240719 0 1346905
+2 rs2862633 0 61974443
+2 rs28569024 0 139008811
+2 rs10106770 0 235832763
+3 rs11942835 0 155913651
+23 rs5945676 0 51433071

inst/extdata/pop_a_ped_tidypopgen.ped

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+pop_a GRC14300079 0 0 0 -9 A A A A G G A A G G G T G G C C T T C C T T G G T T G A T T T T
+pop_a GRC14300142 0 0 0 -9 A A A A G G A A G G G G G G C C T T C G T A G G T T G G T C T T
+pop_a GRC14300159 0 0 0 -9 A A A G G A A A A A G T G G C C T T C C T T G G T T G A T T T T
+pop_a GRC14300286 0 0 0 -9 A A A A G G A A G G G G G G C C T T C G T T G G T T G A T C T T
+pop_a GRC14300305 0 0 0 -9 A A A A G A A A G A T T G G C C T T C C T T G G T T G A T T T T