Muhammad Asim Javed

Hello, I encountered the same error while running the below command ```` glactools vcfm2acf --onlyGT --fai pb3A_genome.fa.fai pb_filtered_biallelic_snps.vcf > pb_filterd_bialleic_snps.acf.gz ```` Only this below Error and no other error SimpleVCF:...

Thank you for the immediate response. I used the GATK pipeline to call variants and combined gvcf files, then selected SNPs only. The species under study is haploid. I don't...

Yes, the above dataset is haploid, and my data is also haploid.

Thank you for getting back to me. I transformed the VCF file with both GT and PL fields. Now, the VCF file looks like this below. I am not sure...

Hello grenaud, Yes, you are right about balancing selection. I mixed the Python script with the Glactools output. I ran Betascan with the Glactools output, and it worked fine. I...