FerRacimo
commented
4 years ago Hi,
You can use the package glactools (https://grenaud.github.io/glactools/) to convert from the eigenstrat (packedancestrymap) format files into VCF format, then use the tutorial here to convert to GRoSS's native format: https://github.com/FerRacimo/GRoSS/blob/master/VCFtoGRoSS.md
Cheers, Fernando
On Sun, Jun 21, 2020 at 4:33 AM TD-lab-Wu notifications@github.com wrote:
Hi, how the input data from Lazaridis et al. (2014) used is GRoSS paper, can be converted into vcf file or format required for GRoSS.
I downloaded the corresponding data from https://reich.hms.harvard.edu/datasets
The data is in PACKEDANCESTRYMAP format .geno Genotype file .ind Individual file .snp SNP file
Thank you!
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-- Fernando Racimo, PhD Assistant Professor of Population Genetics Globe Institute University of Copenhagen Øster Voldgade 5-7, DK-1350 Copenhagen, Denmark
Hi, how the input data from Lazaridis et al. (2014) used is GRoSS paper, can be converted into vcf file or format required for GRoSS.
I downloaded the corresponding data from https://reich.hms.harvard.edu/datasets
The data is in PACKEDANCESTRYMAP format .geno Genotype file .ind Individual file .snp SNP file
Thank you!