Hi,

I have a previously created Boxplots using normalized log2 data using `ggplot2` library in R. Now, I am trying to create the Boxplot using fold change values (example data below) in ggplot2. Could you please assist me how to do the same or provide any useful resources.

    dput(head(Data))
    structure(list(Genes = c("Gene A", "Gene B", "Gene C", "Gene D", 
    "Gene E", "Gene F"), Healthy_Control_p_val = c(1L, 1L, 1L, 1L, 
    1L, 1L), Healthy_Control_FC = c(1L, 1L, 1L, 1L, 1L, 1L), Condition_1_p_val = c(0.002651515, 
    2.48e-05, 0.73640094, 0.009591015, 0.501723078, 0.226255478), 
        Condition_1_FC = c(-1.114126532, 1.228203535, -1.054172268, 
        -1.255231765, 1.028948329, -1.086890065), Condition_2_p_val = c(0.043930415, 
        0.163740086, 0.798708578, 0.575282124, 0.292885948, 0.008037055
        ), Condition_2_Relapse_FC = c(-1.133444608, 1.163213331, 
        -1.195016491, -1.070544661, 1.051757975, -1.190927361), Condition_3_p_val = c(0.472872641, 
        0.62361238, 0.31757426, 0.481332218, 0.169341523, 0.781283534
        ), Condition_3_FC = c(-1.04283358, 1.04223539, 1.01103926, 
        -1.112300841, 1.074033832, -1.041999594)), row.names = c(NA, 
    6L), class = "data.frame")


Thank you,

Toufiq
You first need to Convert your data from wide to long format.

    library("tidyverse")

    df <- df %>%
      select(!ends_with("p_val")) %>%
      pivot_longer(ends_with("FC"), names_to="condition", values_to="fc")
    
    > head(df, 5)
    # A tibble: 5 x 3
      Genes  condition                 fc
      <chr>  <chr>                  <dbl>
    1 Gene A Healthy_Control_FC      1
    2 Gene A Condition_1_FC         -1.11
    3 Gene A Condition_2_Relapse_FC -1.13
    4 Gene A Condition_3_FC         -1.04
    5 Gene B Healthy_Control_FC      1

Now that your data is in long format, you can make any sort of box plot you want. Here's an example.

    ggplot(df, aes(x=condition, y=fc)) +
      geom_boxplot() +
      theme(axis.text.x=element_text(angle=45, hjust=1))

Plot of example data.

![enter image description here][1]


  [1]: https://i.imgur.com/KYV7VRV.png