feat: add build-in gzip decompression

README.md

@@ -6,6 +6,20 @@ Application to show information about and scramble FASTQ files to provide non-se
 
 This application provides the following subcommands
 
+```
+Usage: fastq-tools [OPTIONS] <COMMAND>
+
+Commands:
+  info      Show information about input
+  scramble  Scramble input data
+  help      Print this message or the help of the given subcommand(s)
+
+Options:
+  -d, --decompress  decompress input as gzip compressed data
+  -h, --help        Print help
+  -V, --version     Print version
+```
+
 ### Info
 
 To show information about compressed FASTQ files use:
@@ -14,6 +28,12 @@ To show information about compressed FASTQ files use:
 cat file_fastq.gz | gzip -d | fastq-tools info
 ```
 
+To use build-in decompression of input data, use the `--decompress`/`-d` option:
+
+```shell
+cat file_fastq.gz | fastq-tools --decompress info
+```
+
 This will result in output like
 
 ![Info subcommand](docs/info_subcommand.jpg)
@@ -26,4 +46,10 @@ To scramble compressed FASTQ files use:
 cat file_fastq.gz | gzip -d | fastq-tools scramble | gzip > scrambled_fastq.gz
 ```
 
-This will scramble headers and sequences and write the output into `scrambled_fastq.gz`.
+This will scramble headers and sequences and write the output into `scrambled_fastq.gz`.
+
+To use build-in decompression of input data, use the `--decompress`/`-d` option:
+
+```shell
+cat file_fastq.gz | fastq-tools -d scramble | gzip > scrambled_fastq.gz
+```