Add usage instructions to the README

README.org

@@ -33,3 +33,17 @@ nix-shell
 After running these commands, you will find yourself in a shell that contains all the needed dependencies.
 
 ** Usage
+
+An execution script that accepts 2 parameters is provided, the following command invokes it:
+
+#+begin_src shell
+./generation.sh <number of sequences> <number of reads>
+#+end_src
+
+- <number of sequences>: an integer that specifies the number of different sequences to generate
+- <number of reads>: an integer that specifies the number of reads to perform on each sequence
+
+The script will generate 2 files under the data directory:
+
+| HVR.fastq         | Contains the original CDR3 sequence                             |
+| CuReSim-HVR.fastq | Contains CDR3 after the read simulation, with sequencing errors |

generation.sh

@@ -1,7 +1,7 @@
 #!/bin/sh
 
 usage() {
-	echo "usage: generation.sh <number of sequences> <number_of_reads>"
+	echo "usage: generation.sh <number of sequences> <number of reads>"
 	exit 1
 }