Improving the appearance of a stacked barchart with ggplot2, dplyr, and forcats (CC103)
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- Опубликовано: 14 июл 2024
- Sometimes we don't have a choice in the type of data visualization format we use. Although a stacked barchart is not ideal, there are methods for improving the appearance of stacked barcharts. In this episode of Code Club, Pat uses ggplot2, dplyr, and forcats to show how to pool rare taxa and order the more abundant taxa to give a common anchor point on the y-axis to make comparisons.
Pat will use RStudio and functions from the tidyverse including #ggplot2, #dplyr, and #forcats packages. The accompanying blog post can be found at www.riffomonas.org/code_club/....
Do you have a figure that you would like to receive a critique or help improving? Let me know and I'd be happy to arrange a guest appearance!
If you're interested in taking an upcoming 3 day R workshop, email me at riffomonas@gmail.com!
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Raw data: github.com/riffomonas/raw_dat...
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0:00 Introduction
4:16 Pooling rare phyla
8:36 Specifying order of stacked bars w/ help of forcats
14:41 Changing colors and appearance of legend
17:33 Making bars sit on x-axis
18:15 Critique of figure
21:28 Recap 
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Without using a different chart type, what else would you do to improve the appearance of these stacked bar charts?
You can facet by taxa with scales=free_y.
@@erickcardenas6055 then sort facets so highest mean y is first.
Thanks for sharing these.very helpful!!
amazing videos! glad I found your stuff! greetings from germany :)
My pleasure - thanks for watching!
THE MANNNNNNN thanks a lot
Interesting, I'm back to R and study how write code, this video is useful for start to make charts with weather information, thanks for your video was very helpful.
My pleasure. Thanks for watching!
great video. Thanks
You are welcome!
Well, the.beauty of you presentations is that you not only learn R.... Actually, what I learn is English😃😃😃
Ha! That’s wonderful to hear. Thanks for watching 🤓
Nice vid!
You’re awesome!
Love stacked bar charts! What alternative do you prefer?
nice vid
Thanks dude
Thank you so much for your lectures. They really help me understand the basics of R.
I have a questions concerning barcharts in ggplot2. Is there a way to place the bars and tick labels between the tick marks rather than on them? This is possible in excel. It will be nice to replicate that in R
I know it’s possible. Probably would involve using the theme function on the major and minor axis ticks
@@Riffomonas Thank you so much. I'll try that again and see what I get.
Thanks a lot! Is there a way (not manually) to reorder the stacked bar plots in a specific/ascending order of the most abundant taxa (Firmicutes)? Leaving Healthy on the left, changing the position of Diarrhea pos. to middel and Diarrhea neg. to the right?
Thanks for watching! Just to be clear - I hate stacked bar charts 😂 You could make the disease status a factor and order the factor by whatever you want
Thank you for the video. What will we do if we want to sort bar in order. For example, we want to put Fermicute at the bottom and the mean will increase in the order : Healthy, Diarrhea C difficile positive, and Diarrhea C difficile negative ?
Keep watching the later episodes in that series where I cover that. Still, I strongly encourage using side by side bars/boxes over stacked bars
@@Riffomonas Thank you ! what post you discuss on this issue? I used stacked bar chart and side by side when I need two
@@minhtrungdang1853 ruclips.net/video/w4X3o6MQjVA/видео.html
Would it be better to separate the phyla into their own graphs and look at them separately? Like different facets or grids? One for each Phyla?
Hopefully you found my other videos, but my preference woudl be to put the taxa on the x-axis and cluster the treatment groups within each taxa. Then represent the individual samples with a jitter plot
Great videos! You can simplify the pooling of taxa with forcats::fct_lump functions into one step, which I find really handy.
how we calculate percentage of each sample.. can you tell me..?
I forget what I did here but you should be able to group by the sample and then look at the count divided by the sum of the counts for each group to get the relative abundance. Multiply by 100 to get the percentage
@@Riffomonas Thank you so much