CODEWITHSUNDEEP
rdataframecsvplotboxplot
Anouar
Anouar

Reputation: 301

Read data from CSV in R and visualize it in a Boxplot

I want to read some data in R from a csv file and then visualize in form of a boxplot. I am getting always an error that the some data is not numeric : Error in mkRespMod(fr, REML = REMLpass) : response must be numeric.

This is my code in R:

library(tidyverse)
library(lme4)
library(emmeans)
library(multcomp)


# set vector with colors and label
COL <- c("Fallow" = "slategray", "Mustard" = "red3" , "Mix4" = "orchid3", "Mix12"= "orange4")
SHP <- c("Fallow"=21,"Mustard"=22,"Mix4"=23, "Mix12"=24)


# generate data frame with original data
data <- read.csv("C:\\Users\\alex\\data.csv", header=T, sep = ';')



datalm_NEE <- lmer(NEE ~ cc_variant + (1|Date), data=data)
df_NEE <- cld(emmeans(lm_NEE, specs ="cc_variant"), Letters=letters, sort=FALSE)

# Plot for BFS
  fig1 <- ggplot(data, aes(x= cc_variant, y=NEE, fill= cc_variant))+
  geom_boxplot()+
  scale_fill_manual(values = COL, guide=FALSE)+
  geom_text(data= df_NEE ,aes(y=-600,x=cc_variant, label=.group))+
  labs(x="Catch crop variant",  y=expression("NEE (mg CO"[2]~"- C"~m^{-2}~h^{-1}~")"), fill="")+
  theme_myBW

ggsave("Fig1.png", width = 84, height = 70, units = "mm", dpi = 600)

This is my data frame:

cc_variant       Date        NEE
1      Fallow 2016-10-18   52.31861
2      Fallow 2016-10-19   36.75274
3      Fallow 2016-10-24   34.59082
4        Mix4 2016-10-18 -516.86837
5       Mix12 2016-10-18 -617.11000
6     Mustard 2016-10-18 -182.24568
7        Mix4 2016-10-19 -102.63776
8       Mix12 2016-10-19 -431.55887
9     Mustard 2016-10-19 -139.04121
10    Mustard 2016-10-24 -114.09939
11      Mix12 2016-10-24 -400.21260
12       Mix4 2016-10-24 -175.33208

And this how I create my csv file:

data

Upvotes: 0

Views: 235

Answers (1)

Ronak Shah
Ronak Shah

Reputation: 389335

You have semi-colon separated data so use read.csv2 or read.csv with semi-colon as separator. Assuming the first dot is not needed we can remove those and convert the data to numeric.

data <- read.csv2('data.csv')
data$NEE <- as.numeric(sub('.', '', data$NEE, fixed = TRUE))
lm_NEE <- lmer(NEE ~ cc_variant + (1|Date), data=data)

This fixes the first step but it fails at the next step with cld, not sure about the issue there.

Upvotes: 1

Related Questions