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  • Convertir en Factor

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    MÉLIDA NÚÑEZ
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    This document contains R code that analyzes DNA marker data. It loads in data on multiple markers (M) and assigned alleles (A) along with their probabilities (P). It then transforms the data, calculates densities, and produces several density ridge plots to visualize the relationship between the probability (P) and marker (M) variables.

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    convertir en factor

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    This document contains R code that analyzes DNA marker data. It loads in data on multiple markers (M) and assigned alleles (A) along with their probabilities (P). It then transforms the data, calculates densities, and produces several density ridge plots to visualize the relationship between the probability (P) and marker (M) variables.

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    © All Rights Reserved
    Download as TXT, PDF, TXT or read online from Scribd
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    1 views2 pages

    Convertir en Factor

    Uploaded by

    MÉLIDA NÚÑEZ
    This document contains R code that analyzes DNA marker data. It loads in data on multiple markers (M) and assigned alleles (A) along with their probabilities (P). It then transforms the data, calculates densities, and produces several density ridge plots to visualize the relationship between the probability (P) and marker (M) variables.

    Copyright:

    © All Rights Reserved
    Download as TXT, PDF, TXT or read online from Scribd
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    of 2

    # Check directory

    getwd()
    # Chage directory
    setwd("/Users/melidanunecastillo/Desktop/R SCRIPTS/Basic Statistics")
    # Create variables
    M <- c("D13S317", "D13S317", "D13S317", "D13S317","D13S317", "D13S317", "D21S11",
    "D21S11", "D21S11", "D21S11", "D21S11", "D21S11", "D21S11", "D21S11", "D18S51",
    "D18S51", "D18S51", "D18S51", "D18S51", "D18S51", "D18S51", "D18S51", "D18S51",
    "D18S51", "TH01", "TH01", "TH01", "TH01", "TH01", "TH01", "D5S818", "D5S818",
    "D5S818", "D5S818", "D5S818", "D5S818", "FGA", "FGA", "FGA", "FGA", "FGA", "FGA",
    "FGA", "FGA", "FGA")
    A <- c("8", "9", "10", "11", "12", "13", "28", "29", "30", "30.2", "31", "31.2",
    "32.2", "33.2", "12", "13", "14", "15", "16", "17", "18", "19", "20", "21", "6",
    "7", "8", "9", "9.3", "10", "9", "10", "11", "12", "13", "14", "18", "19", "20",
    "21", "22", "23", "24", "25", "26")
    P <- c(0.13636, 0.16667, 0.09091, 0.25758, 0.24242, 0.10606,0.06061, 0.24242,
    0.28788, 0.0303, 0.0303, 0.22727, 0.10606, 0.01515, 0.0303, 0.19697, 0.18182,
    0.21212, 0.07576, 0.15152, 0.06061, 0.0303, 0.04545, 0.01515, 0.25758, 0.13636,
    0.22727, 0.22727, 0.10606, 0.04545, 0.09091, 0.36364, 0.06061, 0.27273, 0.16667,
    0.04545, 0.06061, 0.13636, 0.07576, 0.0303, 0.07576, 0.19697, 0.21212, 0.15152,
    0.06061)

    O <- data.frame(M, A, P)
    View(O)

    names(O)

    str(O)

    library(ggplot2)
    library(ggridges)
    library(tidyverse)
    library(hrbrthemes)
    library(viridis)
    library(plyr)

    O$M <- factor(O$M,


    levels = rev(c("D13S317", "D21S11", "D18S51", "TH01", "D5S818",
    "FGA")))
    ggplot(O, aes(x = P, y = M)) +
    geom_density_ridges()

    ggplot(O, aes(x=P, y=M, fill=P)) +


    geom_density_ridges_gradient(scale = 3) +
    theme_ridges() +
    scale_y_discrete(expand = c(0.3, 0)) +
    scale_x_continuous(expand = c(0.01, 0)) +
    labs(x="P",y="M") +
    ggtitle("P+M") +
    theme(plot.title = element_text(hjust = 0.5))
    library(viridis)
    library(hrbrthemes)

    ggplot(O, aes(x = P, y = M, fill = ..x..)) +


    geom_density_ridges_gradient(scale = 1, rel_min_height = 0.01) +
    scale_fill_viridis(name = "P", option = "H") +
    labs(title = 'Temperatures in Lincoln NE in 2016') +
    theme_ipsum() +
    theme(
    legend.position="none",
    panel.spacing = unit(0.5, "lines"),
    strip.text.x = element_text(size = 8)
    )

    ggplot(O, aes(y=M, x=P, fill=M)) +


    geom_density_ridges(alpha=0.6, stat="binline", bins=20) +
    theme_ridges() +
    theme(
    legend.position="none",
    panel.spacing = unit(0.1, "lines"),
    strip.text.x = element_text(size = 8)
    ) +
    xlab("") +
    ylab("Assigned Probability (%)")

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