Datasets:
File size: 1,202 Bytes
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Options in effect:
--double-id
--geno 0.1
--hwe 1e-6
--make-bed
--mind 0.05
--out num
--recode A
--vcf ../raw_snps.vcf
Hostname: user-H3C-UniServer-R5300-G6
Working directory: /home/wlg/MyFiles/Projects/EasyGS/Q005/answer
Start time: Wed May 20 20:32:30 2026
Random number seed: 1779280350
2063880 MB RAM detected; reserving 1031940 MB for main workspace.
--vcf: num-temporary.bed + num-temporary.bim + num-temporary.fam written.
40000 variants loaded from .bim file.
10 people (0 males, 0 females, 10 ambiguous) loaded from .fam.
Ambiguous sex IDs written to num.nosex .
0 people removed due to missing genotype data (--mind).
Using 1 thread (no multithreaded calculations invoked).
Before main variant filters, 10 founders and 0 nonfounders present.
Calculating allele frequencies... done.
Total genotyping rate is 0.998638.
138 variants removed due to missing genotype data (--geno).
--hwe: 0 variants removed due to Hardy-Weinberg exact test.
39862 variants and 10 people pass filters and QC.
Note: No phenotypes present.
--make-bed to num.bed + num.bim + num.fam ... done.
--recode A to num.raw ... done.
End time: Wed May 20 20:32:30 2026
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