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a |
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b/R/calc_pcareduceres.R |
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calc_pcareduceres <- function(obj, reduce) { |
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if (!reduce) { |
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return(t(obj)) |
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} |
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df <- data.frame(x = 1:20) |
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df$sdev <- prcomp(t(obj), scale = TRUE)$sdev[1:20] |
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optpoint <- which.min( |
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vapply( |
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2:10, |
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function(i) { |
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data$x2 <- pmax(0, data$x - i) |
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sum(lm(sdev ~ x + x2, df)$residuals^2) |
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}, |
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0 |
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) |
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) |
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pcadim <- optpoint + 1 |
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tmpdata <- t(apply(obj, 1, scale)) |
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colnames(tmpdata) <- colnames(obj) |
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tmppc <- prcomp(t(tmpdata), scale = TRUE) |
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return(t(tmpdata) %*% tmppc$rotation[, 1:pcadim]) |
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} |