Question: Format error with EIGENSOFT
0
gravatar for epifaniarango
5 weeks ago by
epifaniarango0 wrote:

Hi everyone!

I just download a dataset form the David Reich web (https://reich.hms.harvard.edu/sites/reich.hms.harvard.edu/files/inline-files/NathanN_Data_forRelease_Patagonia.zip). I am trying to convert it to PLINK format which I am more familiar with using convertf with the following par file.

genotypename: /srv/kenlab/epifania/Chile/ANCIENT//Nakatsukaetal2020NatComm_Patagonia.geno snpname: /srv/kenlab/epifania/Chile/ANCIENT/Nakatsukaetal2020NatComm_Patagonia.snp indivname: /srv/kenlab/epifania/Chile/ANCIENT/Nakatsukaetal2020NatComm_Patagonia.ind outputformat: PED genotypeoutname: /srv/kenlab/epifania/Chile/ANCIENT/Nakatsukae_Patagonia.ped snpoutname: /srv/kenlab/epifania/Chile/ANCIENT/Nakatsukae_Patagonia.map indivoutname: /srv/kenlab/epifania/Chile/ANCIENT/Nakatsukae_Patagonia.ped

I already have done this several times without issue with other datasets, but this time I get this error: read failure (length mismatch): Success fatalx: (bigread) bad data read (length mismatch) 54132688 59184624

Does someone know how to fix this? Thank you so much

snp genome eigensoft • 89 views
ADD COMMENTlink written 5 weeks ago by epifaniarango0
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