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Running Smartpca

I'm new to using eigenstrat and smartpca could someone give me an example of an appropriate parameter file? The one I designed only partially works and I'm not sure what else it needs.

---------Script text-----------

Genotypename: geno.EIGENSTRAT

snpname: QC1.snp

indname: QC1.ind

evecountname: QC1ev

evaloutname: QC1evo

outputformat: EIGENSTRAT

genotypeoutname: geno_out

snpoutname: QC1_out

indivoutname: QC1_out

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updated by kipp • kipp • written by jmbarton37 • jmbarton37

Can you be more clear what is going wrong? Your param file seems fine, though I think it should be "indivname"

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updated by Ram Ram • written by kipp • kipp

when entered I get

fatalx:
(getindivs) NULL indivfname
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updated by Ram Ram • written by jmbarton37 • jmbarton37

How do we identify these parameters?

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written by genogeno • genogeno

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