geom_abline for logistic regression (ggplot2)

Question

I am sorry if this question is very simple, however, I could not find any solution to my problem. I want to plot logistic regressions lines with ggplot2. The problem is that I cannot use geom_abline because I dont have the original model, just the slope and intercept for each regression line. I have use this approach for linear regressions, and this works fine with geom_abline, because you can just give multiple slopes and intercepts to the function.

geom_abline(data = estimates, aes(intercept = inter, slope = slo)

where inter and slo are vectors with more then one value.

If I try the same approach with coefficients from a logistic regression, I will get the wrong regression lines (linear). I am trying to use geom_line, however, I cannot use the function predict to generate the predicted values because I dont have the a original model objetc.

Any suggestion?

Thanks in advance, Gustavo

Are you wanting to print the log-odds, the odds, or the predicted probability? — Benjamin
I want to print the regression line from the predicted values, the same you would get from, predict(model,list(resources=xv),type="response"). But I cannot get this values because I only have the the slope and intercept values. — Gustavo B Paterno
those would be the predicted probabilities, and the approach shown by Jeff below is the one I would take. (using plogis). — Benjamin

Jeff Jeff · Accepted Answer · 2015-08-26T11:43:35

If the model had a logit link then you could plot the prediction using only the intercept (coefs[1]) and slope (coefs[2]) as:

library(ggplot2)

n <- 100L
x <- rnorm(n, 2.0, 0.5)
y <- factor(rbinom(n, 1L, plogis(-0.6 + 1.0 * x)))

mod <- glm(y ~ x, binomial("logit"))
coefs <- coef(mod)

x_plot <- seq(-5.0, 5.0, by = 0.1)
y_plot <- plogis(coefs[1] + coefs[2] * x_plot)

plot_data <- data.frame(x_plot, y_plot)

ggplot(plot_data) + geom_line(aes(x_plot, y_plot), col = "red") + 
        xlab("x") + ylab("p(y | x)") +
        scale_y_continuous(limits = c(0, 1)) + theme_bw()

Edit

Here one way of plotting k predicted probability lines on the same graph following from the previous code:

library(reshape2)

k <- 5L

intercepts <- rnorm(k, coefs[1], 0.5)
slopes <- rnorm(k, coefs[2], 0.5)

x_plot <- seq(-5.0, 5.0, by = 0.1)
model_predictions <- sapply(1:k, function(idx) {
            plogis(intercepts[idx] + slopes[idx] * x_plot)
        })

colnames(model_predictions) <- 1:k
plot_data <- as.data.frame(cbind(x_plot, model_predictions))
plot_data_melted <- melt(plot_data, id.vars = "x_plot", variable.name = "model", 
        value.name = "y_plot")

ggplot(plot_data_melted) + geom_line(aes(x_plot, y_plot, col = model)) + 
        xlab("x") + ylab("p(y | x)") +
        scale_y_continuous(limits = c(0, 1)) + theme_bw()

geom_abline for logistic regression (ggplot2)

1 Answers

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