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@@ -113,15 +113,15 @@ cat gencode.v35.annotation.gff3 \
</p> </p>
In this example, YouPlot counts the number of chromosomes where genes are located. In this example, YouPlot counts the number of chromosomes where genes are located.
* [GENCODE - Human Release 38](https://www.gencodegenes.org/human/) * [GENCODE - Human Release](https://www.gencodegenes.org/human/)
Note: `count` is not very fast because it runs in a Ruby script. Note: `count` is not very fast because it runs in a Ruby script.
This is fine in most cases, as long as the data size is small. If you want to visualize huge data, it is faster to use a combination of common Unix commands as shown below. This is fine in most cases, as long as the data size is small. If you want to visualize huge data, it is faster to use a combination of common Unix commands as shown below.
```sh ```sh
cat gencode.v35.annotation.gff3 | grep -v '#' | grep 'gene' | cut -f1 \ cat gencode.v35.annotation.gff3 | grep -v '#' | grep 'gene' | cut -f1 \
| sort | uniq -c | sort -nrk2 | awk '{print $2,$1}' \ | sort | uniq -c | sort -nrk1 \
| uplot bar -d ' ' -t "The number of human gene annotations per chromosome" -c blue | uplot bar --fmt yx -d ' ' -t "The number of human gene annotations per chromosome" -c blue
``` ```
## Usage ## Usage