plink 软件 输出日志文件中 founders 和 nonfounders指的是什么？

 

001、founders：同时没有父本和母本信息的个体

002、nofunders：有父本或者母本信息的个体。

 

（1）、测试

root@DESKTOP-1N42TVH:/home/test4# ls
test.map  test.ped
root@DESKTOP-1N42TVH:/home/test4# plink --file test --recode --out xxx
PLINK v1.90b6.26 64-bit (2 Apr 2022)           www.cog-genomics.org/plink/1.9/
(C) 2005-2022 Shaun Purcell, Christopher Chang   GNU General Public License v3
Logging to xxx.log.
Options in effect:
  --file test
  --out xxx
  --recode

16007 MB RAM detected; reserving 8003 MB for main workspace.
.ped scan complete (for binary autoconversion).
Performing single-pass .bed write (238989 variants, 165 people).
--file: xxx-temporary.bed + xxx-temporary.bim + xxx-temporary.fam written.
238989 variants loaded from .bim file.
165 people (80 males, 85 females) loaded from .fam.
112 phenotype values loaded from .fam.
Using 1 thread (no multithreaded calculations invoked).
Before main variant filters, 112 founders and 53 nonfounders present.
Calculating allele frequencies... done.
Total genotyping rate is 0.997673.
238989 variants and 165 people pass filters and QC.
Among remaining phenotypes, 56 are cases and 56 are controls.  (53 phenotypes
are missing.)
--recode ped to xxx.ped + xxx.map ... done.

 

（2）验证

root@DESKTOP-1N42TVH:/home/test4# ls
test.map  test.ped  xxx.log  xxx.map  xxx.ped
root@DESKTOP-1N42TVH:/home/test4# awk '$3 == 0 && $4 == 0' xxx.ped | wc -l
112
root@DESKTOP-1N42TVH:/home/test4# awk '$3 != 0 || $4 != 0' xxx.ped | wc -l
53