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link to scan1gen vignette in help for scan1gen and scan1perm
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R/scan1gen.R

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#' # perform genome scan using glm() with probit link function
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#' out <- scan1gen(probs, bin_pheno, Xcovar=Xcovar, func=ll_glm)
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#'
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#' @seealso [scan1()], [scan1perm()], [scan1max()]
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#' @seealso [scan1()], [scan1perm()], [scan1max()], [scan1gen examples](https://kbroman.org/qtl2/assets/vignettes/scan1gen.html)
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#'
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#' @export
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scan1gen <-

R/scan1perm.R

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#' scan_func=scan1snps, query_func=queryf, n_perm=3)
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#' }
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#'
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#' @seealso [scan1()], [chr_lengths()], [mat2strata()]
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#' @seealso [scan1()], [chr_lengths()], [mat2strata()], [scan1gen examples](https://kbroman.org/qtl2/assets/vignettes/scan1gen.html)
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#'
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#' @export
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scan1perm <-
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function(genoprobs, pheno, kinship=NULL, addcovar=NULL, Xcovar=NULL,

man/scan1gen.Rd

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man/scan1perm.Rd

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