diff --git a/README.md b/README.md
index 597a936..1a8c50b 100644
--- a/README.md
+++ b/README.md
@@ -9,7 +9,7 @@
[](LICENSE.txt)
[](https://zenodo.org/badge/latestdoi/283230219)
- YouPlot is a command line tool that draws plots in a terminal.
+ YouPlot is a command line tool that draws plots in the terminal.
:bar_chart: Powered by [UnicodePlot](https://github.com/red-data-tools/unicode_plot.rb)
@@ -23,8 +23,7 @@ gem install youplot
## Quick Start
-* `cat data.tsv | uplot [options]` or
-* `uplot [options] `
+`uplot [options] `
### barplot
@@ -103,10 +102,6 @@ curl -sL https://git.io/IRIStsv \
### count
-In this example, YouPlot counts the number of chromosomes where the gene is located from the human gene annotation file and it creates a bar chart. The human gene annotation file can be downloaded from the following website.
-
-* https://www.gencodegenes.org/human/
-
```sh
cat gencode.v35.annotation.gff3 \
| grep -v '#' | grep 'gene' | cut -f1 \
@@ -117,13 +112,16 @@ cat gencode.v35.annotation.gff3 \
+In this example, YouPlot counts the number of chromosomes where genes are located.
+* [GENCODE - Human Release](https://www.gencodegenes.org/human/)
+
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.
```sh
cat gencode.v35.annotation.gff3 | grep -v '#' | grep 'gene' | cut -f1 \
-| sort | uniq -c | sort -nrk2 | awk '{print $2,$1}' \
-| uplot bar -d ' ' -t "The number of human gene annotations per chromosome" -c blue
+| sort | uniq -c | sort -nrk1 \
+| uplot bar --fmt yx -d ' ' -t "The number of human gene annotations per chromosome" -c blue
```
## Usage
@@ -143,18 +141,7 @@ YouPlot is a command line tool for this purpose. With YouPlot, you can continue
| `uplot [options] data.tsv ...` | Take input from files |
| `pipeline1 \| uplot -O \| pipeline2` | Outputs data from stdin to stdout |
-### Where to output the plot?
-
-By default, the plot is output to *standard error output*.
-The output file or stream for the plot can be specified with the `-o` option.
-
-### Where to output the input data?
-
-By default, the input data is not shown anywhere.
-The `-O` option, with no arguments, outputs the input data directly to the standard output.
-This is useful when passing data to a subsequent pipeline.
-
-### What types of plots are available?
+### Subcommands
The following sub-commands are available.
@@ -174,6 +161,17 @@ See Quick Start for `count`.
|-----------|-------|----------------------------------------------------------|
| count | c | draw a barplot based on the number of occurrences (slow) |
+### Where to output the plot?
+
+By default, the plot is output to *standard error output*.
+The output file or stream for the plot can be specified with the `-o` option.
+
+### Where to output the input data?
+
+By default, the input data is not shown anywhere.
+The `-O` option, with no arguments, outputs the input data directly to the standard output.
+This is useful when passing data to a subsequent pipeline.
+
### What if the header line is included?
If your input data contains a header line, you need to specify the `-H` option.