Remove Unused Factor Levels from a Ggplot Bar Plot

ggplot2 keep unused levels barplot

You need to set drop=FALSE on both scales (fill and x) like this:

library(ggplot2)
df <- data.frame(type=c("A", "A", "A", "B", "B"), group=rep("group1", 5))
df1 <- data.frame(type=c("A", "A", "A", "B", "B", "A", "A", "C", "B", "B"), group=c(rep("group1", 5),rep("group2", 5)))
df$type <- factor(df$type, levels=c("A","B", "C"))
df1$type <- factor(df1$type, levels=c("A","B", "C"))

plt <-  ggplot(df, aes(x=type, fill=type)) + 
          geom_bar(position='dodge') + 
          scale_fill_discrete(drop=FALSE) +
          scale_x_discrete(drop=FALSE)
plt1 <- ggplot(df1, aes(x=type, fill=type)) + 
          geom_bar(position='dodge') + 
          scale_fill_discrete(drop=FALSE) +
          scale_x_discrete(drop=FALSE)

Edit:

I'm pretty sure this works. Forgot to change x to type instead of group and the position='dodge'! Just paste and test. The stat_bin deals with bins with zero counts. Check the docs.

Remove unused factor levels from a ggplot bar plot

One easy options is to use na.omit() on your data frame df to remove those rows with NA

ggplot(na.omit(df), aes(x=name,y=var1)) + geom_bar()

Given your update, the following

ggplot(df[!is.na(df$var1), ], aes(x=name,y=var1)) + geom_bar()

works OK and only considers NA in Var1. Given that you are only plotting name and Var, apply na.omit() to a data frame containing only those variables

ggplot(na.omit(df[, c("name", "var1")]), aes(x=name,y=var1)) + geom_bar()

ggplot: how to remove unused factor levels from a facet?

Setting scales = free in facet grid will do the trick:

facet_grid( ~ fac, scales = "free")

Remove empty factors from clustered bargraph in ggplot2 with multiple facets

To illustrate my comment:

a<-ggplot(foo,aes(x = factor(Treatment),y = Count))
a+ facet_wrap(~Origin, scales="free_x") + 
    geom_bar(stat="identity",aes(fill=factor(Type)),position="dodge") + 
    theme_bw() + 
    theme(axis.text.x=element_text(angle=60,hjust=1))

Note that if you add coord_flip and switch to free_y you get a specific error about coord_flip not working with some types of free scales, which is the source of you problem.

ggplot2 0.9.0 automatically dropping unused factor levels from plot legend?

Yes, you want to add drop = FALSE to your colour scale:

ggplot(subset(df,fruit == "apple"),aes(x = year,y = qty,colour = fruit)) + 
    geom_point() + 
    scale_colour_discrete(drop = FALSE)

ggplot2: Drop unused factors in a faceted bar plot but not have differing bar widths between facets

How about this:

df$w <- 0.9
df$w[df$TIME == 5] <- 0.9 * 3/4
ggplot(df, aes(x=ID, y=VAL, fill=TYPE)) +
   facet_wrap(~TIME, ncol=1, scale="free") +
   geom_bar(position="stack",aes(width = w),stat = "identity") +
   coord_flip()

Not sure if I got the arithmetic right there, but you get the idea.

Removing unused factors from grouped facet_grid bar plot

The problem is your use of scale_x_discrete. You can transform response.cat into an ordered factor instead:

plot.data$response.cat <- factor(plot.data$response.cat, levels = c("Strongly \ndisagree","Disagree","Mildly \ndisagree","Uncertain","Mildly \nagree","Agree","Strongly \nagree"))

ggplot(plot.data, aes(response.cat, score)) +   
  facet_grid(. ~ response.set, scales="free_x", space = "free_x") +
  geom_bar(aes(fill = split), position = "dodge", stat="identity")+
  scale_fill_manual(values=c(col.set), labels= plot.labels )+
  ylim(c(0,100))+
  theme(legend.title = element_blank(), legend.position = "bottom", 
        legend.text=element_text(colour= "gray23"), legend.key.height=unit(3,"mm")) +
  theme(axis.title= element_blank()) +
  geom_text(aes(fill = split, label = paste0(score,"%")), colour = "gray23", vjust=-1, position=position_dodge(.9),size=3)+  
  theme(panel.grid.minor.y = element_blank()) +
  theme(panel.grid.major.y = element_line(colour = "gray")) +
  theme(panel.grid.major.x =element_blank(), panel.grid.minor.x =element_blank()) +
  theme(panel.background = element_rect(fill="white")) +
  theme(axis.text.x = element_text(colour = "gray23")) +
  theme(axis.text.y = element_text(colour = "gray23")) +
  theme(axis.ticks.y=element_blank()) 

How to make ggplot2 keep unused levels on data subset

The issue here is that a count of zero is not generated for sps = TAST, forage = CF. You can create that count using tidyr::complete. I've also added some dplyr functions to make the code cleaner. Assuming that your data frame is named df1 (as opposed to data, which is a base function name so not a good choice):

UPDATED: with stringsAsFactors = FALSE to address issues in comments.

library(dplyr)
library(tidyr)
library(ggplot2)

df1 <- read.table("data.txt", header = TRUE, stringsAsFactors = FALSE)
df1 %>% 
  filter(sps != "MICRO") %>% 
  group_by(sps) %>% 
  count(forage) %>% 
  ungroup %>% 
  complete(sps, forage, fill = list(n = 0)) %>% 
  ggplot(aes(sps, n)) + geom_col(aes(fill = forage), position = "dodge") +
    scale_x_discrete(labels=c("Marmot","American Mink", "Weasel Spp.", "Red squirrel", "Chipmunk")) + 
    theme_classic() + 
    scale_fill_manual(values=c("#000000", "#666666", "#999999","#CCCCCC"), name = "Event") + 
    labs(x = "Species", y = "Number of observations")

Result:

Removing per-panel unused factors in a bar chart

Here's a quick way using latticeExtra:

pl1 <- barchart(Perf ~ Benchmark|Class, class.subset(dm, 'PI'), groups=Config, 
                auto.key=list(columns=3))
pl2 <- barchart(Perf ~ Benchmark|Class, class.subset(dm, 'PF'), groups=Config)
pl3 <- barchart(Perf ~ Benchmark|Class, class.subset(dm, 'CS'), groups=Config)
pl4 <- barchart(Perf ~ Benchmark|Class, class.subset(dm, 'PU'), groups=Config)

library(latticeExtra)
pls <- c(pl1, pl2, pl3, pl4)
pls <- update(pls, scales=list(y="same"))
pls

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