Multiple boxplots in R

Question

I have gene expression data as follows:

       Control            Treatment
        L1    L2          L1   L2      
 g1   10.5    12          13   14  
 g2    11     13          10.5 12  
 g3    10     9           11   10   
 g4    9      8           6     5 
 g5    16     4           4     6
 g6    11     12          5     4
 g7    10     6           13    12 
 g8    5      4           12    12  
 g9    11     12          10    11.5   
 g10   8.9    7.8         7.6   5.8

where the rows represent the genes and there are two conditions "control" and "treatment" which is further subdivided into "L1", "L2" and "L1" and "L2" respectively.

I would like to make a boxplot of these expression values in the following way and represent them as a boxplot ??

Answer 1

x
    V1   V2   V3   V4   V5
1   g1 10.5 12.0 13.0 14.0
2   g2 11.0 13.0 10.5 12.0
3   g3 10.0  9.0 11.0 10.0
4   g4  9.0  8.0  6.0  5.0
5   g5 16.0  4.0  4.0  6.0
6   g6 11.0 12.0  5.0  4.0
7   g7 10.0  6.0 13.0 12.0
8   g8  5.0  4.0 12.0 12.0
9   g9 11.0 12.0 10.0 11.5
10 g10  8.9  7.8  7.6  5.8


x.m<-melt(x, id.var="V1")
x.m$control<-ifelse(x.m$variable %in% c("V2", "V3"), "Control","Treatment")
x.m$L<-ifelse(x.m$variable %in% c("V2", "V4"), "L1","L2")

ggplot(x.m, aes(x=L,y=value,  fill=control))+geom_boxplot()