Could I run fastGWA for haploid male non-PAR of chrX ?

Hi,



I would like to run fastGWA for haploid male non-PAR of chromosome X.



When the following way was executed, make model is success, but in association tests, the error message was output and no results were obtained...

# In association tests of female non-PAR of chromosome X, the results were obtained.



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gcta64 --mbfile List_bed_Auto.txt --grm-sparse sparse_grm --fastGWA-mlm --model-only --pheno pheno1.pheno --qcovar age.txt --covar sex.txt --keep Male.bgen.keep --threads 8 --out ChrX_Male



gcta --threads 8 --bgen ChrX.1_GP.bgen --sample ChrX.1_GP.sample --load-model ChrX_Male.fastGWA --dc 0 --pheno pheno1.pheno --qcovar age.txt --covar sex.txt --keep Male.bgen.keep --out ChrX.1_Male

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# I use gcta64 v1.93.1.



Error message:

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Error: multi ploidy detected in 3th SNP of [ChrX.1_GP.bgen].

An error occurs, please check the options or data

Error: multi ploidy detected in 0th SNP of [ChrX.1_GP.bgen].

An error occurs, please check the options or data

Error: multi ploidy detected in 5th SNP of [ChrX.1_GP.bgen].

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Is this not the right way to do it?

I would appreciate your advice.



Thank you.