GCTA make GRM error contains illegal chr number

1

Hi

I created bim, fam, and bed files by Plink with the use of these codes.

> shell("plink --file r --maf 0.05 --geno 0.01 --mind 0.1 --hwe 1e-6
> --nonfounders --horse --make-bed --out r") 
> 
> shell("plink --file r --maf 0.05 --geno 0.01 --mind 0.1 --hwe 1e-6
> --nonfounders --horse --recode --out r") 
> 
> 
> shell("plink --file r --maf 0.05 --geno 0.01 --mind 0.1 --hwe 1e-6
> --nonfounders --horse --recodeA --out rA") 
> 
> shell("plink --file r --maf 0.05 --geno 0.01 --mind 0.1 --hwe 1e-6
> --nonfounders --horse --recodeAD --out rAD")

Now, I want to create GRM by GCTA software.

> gcta64  --bfile r  --autosome  --make-grm  --out r

But I am faced with an error.

Error: Line 1015 of [file.bim] contains illegal chr number, please check
Line of 1015:   27  M2609   0   913820  1   2

I removed this line but I see again this error in another line.

How can I solve this problem?

Thank you for your time


plink


GCTA

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