I have been attempting to sort my dataframe by the first column - or day - with multiple different methods listed below to no avail. I suspect it could be because it is attempting to order by the first number but I am unsure how I would change that to get it to order the rows properly. The dataset is as follows:
df1
[day][sample1][sample2]
[1,]day0 22 11
[2,]day11 23 15
[3,]day15 25 14
[4,]day2 21 13
[5,]day8 20 17
...
I am looking to order the entire row by day. I have tried the following
df[sort(as.character(df$day)),]
df[order(as.character(df$day)),]
mixedorder(as.character(df$day)) (gtools package)
The mixedorder
merely output an index of numbers.
Current Code:
df_0$day = metadata_df[,3]
df_0 <- df_0[,c(8,1:7)]
df1 <- aggregate(df_0[,2:ncol(df_0)], df_0[1], mean)
df1 <- df1[mixedorder(as.character(df1$day)),]
df1$day <- factor(df1$day, levels = unique(df1$day))
rownames(df1) <- 1:nrow(df1)
##Plotting expression levels
Plot1 <- ggplot() +
geom_line(data=df1, aes(x=day, y=sample1, group=1, color="blue"))+
geom_line(data=df2, aes(x=day, y=sample1, group=2, color="red"))
Note that I have done the same transformations with df2 as I have with df1. Both df1 and df2 are the same, except with slightly different values in them.
The mixedorder
gives the ordered index which can be used to order the rows
df1 <- df[mixedorder(as.character(df$day)),]
df1
# day sample1 sample2
#1 day0 22 11
#4 day2 21 13
#5 day8 20 17
#2 day11 23 15
#3 day15 25 14
It is not clear about how the OP is plotting.
library(tidyverse)
df1 %>%
mutate(day = factor(day, levels = unique(day))) %>%
gather(key, val, -day) %>%
ggplot(., aes(x = day, y = val, color = key)) +
geom_point()
df <- structure(list(day = structure(1:5, .Label = c("day0", "day11",
"day15", "day2", "day8"), class = "factor"), sample1 = c(22L,
23L, 25L, 21L, 20L), sample2 = c(11L, 15L, 14L, 13L, 17L)), .Names = c("day",
"sample1", "sample2"), class = "data.frame", row.names = c(NA,
-5L))
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