plink 软件中 --set-missing-var-ids参数实现对缺失的snp位点命名

 

001、测试数据

(base) root@DESKTOP-IDT9S0E:/home/test# ls
a.map  a.ped
(base) root@DESKTOP-IDT9S0E:/home/test# cat a.map
1       OAR19_64675012.1        0       85204
1       OAR19_64715327.1        0       122948
1       .       0       356863
1       .       0       400518
1       .       0       487423
1       .       0       578716
(base) root@DESKTOP-IDT9S0E:/home/test# cat a.ped
DOR     1       0       0       0       -9      C C     G G     A A     G G     G C     A G
DOR     2       0       0       0       -9      G C     G G     A A     A G     C C     A G
DOR     3       0       0       0       -9      C C     G G     A A     A G     G C     G G
DOR     4       0       0       0       -9      C C     G G     A A     G G     G G     G G
DOR     5       0       0       0       -9      C C     G G     A A     A G     G C     G G
DOR     6       0       0       0       -9      C C     G G     A A     A A     C C     G G
(base) root@DESKTOP-IDT9S0E:/home/test# plink --file a --set-missing-var-ids @_# --recode tab --out result 1> /dev/null
(base) root@DESKTOP-IDT9S0E:/home/test# ls
a.map  a.ped  result.log  result.map  result.nosex  result.ped
(base) root@DESKTOP-IDT9S0E:/home/test# cat result.map   ## 命名结果
1       OAR19_64675012.1        0       85204
1       OAR19_64715327.1        0       122948
1       1_356863        0       356863
1       1_400518        0       400518
1       1_487423        0       487423
1       1_578716        0       578716